Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold27
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2789374
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 115785 characters in sequence are not A, C, G, or T
File 15 of 16
Found at i:2501171 original size:43 final size:46
Alignment explanation
Indices: 2501054--2501287 Score: 206
Period size: 49 Copynumber: 4.9 Consensus size: 46
2501044 AGTGGCGCCT
* * **
2501054 TCTTCTAAGTCCAATATTGCTGGCCTTGAACCAGCATATTGGTGCCTTTA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC---A
**
2501104 TCTTTAAAACCCAATATCGCTGGCCTTGAATCAGCATATT-G-A-CA
1 TCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCA
* *
2501148 CCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--CA
* * * * *
2501197 TCTTTAAGACCAATGTTGCTGGCCTTGAATCA-CACATTGGTATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--CA
* *
2501245 TCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
2501288 TCTTTAACAT
Statistics
Matches: 150, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
43 31 0.21
44 6 0.04
45 1 0.01
47 1 0.01
48 38 0.25
49 39 0.26
50 34 0.23
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (46 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCA
Found at i:2501185 original size:93 final size:94
Alignment explanation
Indices: 2501059--2501287 Score: 266
Period size: 93 Copynumber: 2.4 Consensus size: 94
2501049 CGCCTTCTTC
* * * ** ***
2501059 TAAGTCCAATATTGCTGGCCTTGAACCAGCATATTGGTGCCTTTATCTTTAAAACCCAATATCGC
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAAA-CCAATATCGC
*
2501124 TGGCCTTGAATCAGCATATT-G-A-CACCTT
65 TGGCCTTGAATCA-CACATTGGTATCACCTT
* * *
2501152 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGACCAATGTTGCT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAAACCAATATCGCT
*
2501217 GGCCTTGAATCACACATTGGTATCTTCATCTT
66 GGCCTTGAATCACACATTGGTA---TCACCTT
*
2501249 TAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCA
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
2501288 TCTTTAACAT
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
91 5 0.04
92 22 0.19
93 46 0.40
97 43 0.37
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (94 bp):
TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAAACCAATATCGCT
GGCCTTGAATCACACATTGGTATCACCTT
Found at i:2501268 original size:48 final size:49
Alignment explanation
Indices: 2501149--2501445 Score: 190
Period size: 49 Copynumber: 5.9 Consensus size: 49
2501139 ATATTGACAC
* **
2501149 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCAT
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCAT
* * * * * *
2501198 CTTTAAGACCAATGTTGCTGGCCTTGAATCA-CACATTGGTATCTTCAT
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCAT
* * *
2501246 CTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCAT
* * ** * *
2501295 CATTCCTAAG-CCTAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCTT
1 C-TT--TAAGTCC-AATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCAT
* * * ** ** * * *
2501345 CTTCAAGTCTAATGTCACTGATCGTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
* *
2501400 CTTTAAGCCCAATATCGTTGG-CTGTGAATCAGCATATTGGTATCTT
1 CTTTAAGTCCAATATCGTTGGCCT-TGAATCAGCATATTGGCATCTT
2501446 TCTCACTCTT
Statistics
Matches: 185, Mismatches: 48, Indels: 30
0.70 0.18 0.11
Matches are distributed among these distances:
47 28 0.15
48 39 0.21
49 44 0.24
50 6 0.03
51 2 0.01
52 30 0.16
54 3 0.02
55 33 0.18
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (49 bp):
CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCAT
Found at i:2503530 original size:10 final size:10
Alignment explanation
Indices: 2503515--2503555 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
2503505 CATCCTTCAT
2503515 ACCAAAAAAA
1 ACCAAAAAAA
2503525 ACC-AAAAAA
1 ACCAAAAAAA
2503534 ACCAAAAAAAA
1 ACC-AAAAAAA
*
2503545 AACAAAAAAA
1 ACCAAAAAAA
2503555 A
1 A
2503556 AACCCCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 9 0.32
10 11 0.39
11 8 0.29
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (10 bp):
ACCAAAAAAA
Found at i:2503533 original size:9 final size:9
Alignment explanation
Indices: 2503519--2503543 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2503509 CTTCATACCA
2503519 AAAAAAACC
1 AAAAAAACC
2503528 AAAAAAACC
1 AAAAAAACC
2503537 AAAAAAA
1 AAAAAAA
2503544 AAACAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACC
Found at i:2503557 original size:11 final size:11
Alignment explanation
Indices: 2503518--2503558 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2503508 CCTTCATACC
*
2503518 AAAAAAAAC-C
1 AAAAAAAACAA
*
2503528 AAAAAAACCAA
1 AAAAAAAACAA
2503539 AAAAAAAACAA
1 AAAAAAAACAA
2503550 AAAAAAAAC
1 AAAAAAAAC
2503559 CCCTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:2504915 original size:28 final size:28
Alignment explanation
Indices: 2504875--2505431 Score: 562
Period size: 28 Copynumber: 19.4 Consensus size: 28
2504865 GCCTCTTTTT
* *
2504875 AAAGCCTAGAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
2504903 AAAGCCCACAAGTTAGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
2504931 AAAGCCCACAAGTCAGTGGC-CCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
2504958 AAAGCCCACAAGTCAATGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
2504987 AAAGCCCACAAGTCAGTGGCATCCTTCTC
1 AAAGCCCACAAGTCAGTGGCATCCTT-TC
* * *
2505016 AAAGCCCACAAGTTAGTGACATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
2505044 AAAGCCCACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
2505072 AAAGCCCATAAGTCAATGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
2505100 AAAGCCCACAAGTTAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
2505128 AAAGCCCACAAGTCAATGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
2505156 AAAGCCCATATGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
2505184 AAAGCCCACAAGTCAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
* *
2505213 GAAA-CCCACAAGTCAGTGGTAACTCTTTTC
1 -AAAGCCCACAAGTCAGTGG-CA-TCCTTTC
* ** *
2505243 AAAGTCTACACAAGTTGGTGGCAACTCTTTTC
1 AAAG-C-CCACAAGTCAGTGGC-A-TCCTTTC
* *
2505275 AAAGCTCACACAAATCAGTGGCACCCTTTC
1 AAAGC-C-CACAAGTCAGTGGCATCCTTTC
* * *
2505305 AAAGCCTACAAGTCAATGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
2505333 AAAACCCATAAGTCAGTGGCATACTTTTTC
1 AAAGCCCACAAGTCAGTGGCAT-C-CTTTC
* * * *
2505363 AAAGCCCATAAGTCGGTGGCACCCATTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
2505391 AAAGCCCATACAAGT-GGTGGCAACTCTTTTC
1 AAAGCCC--ACAAGTCAGTGGC-A-TCCTTTC
2505422 AAAGCCCACA
1 AAAGCCCACA
2505432 TAAGTTAGTG
Statistics
Matches: 449, Mismatches: 62, Indels: 35
0.82 0.11 0.06
Matches are distributed among these distances:
27 24 0.05
28 242 0.54
29 85 0.19
30 47 0.10
31 16 0.04
32 35 0.08
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:2505577 original size:45 final size:47
Alignment explanation
Indices: 2505522--2505626 Score: 133
Period size: 49 Copynumber: 2.2 Consensus size: 47
2505512 CCGATATCGC
* * *
2505522 TGGCATTGAATCAGCATATTGG-CATCTTT-ATTAGCCCAATGTCGT
1 TGGCCTTGAATCAGAACATTGGCCATCTTTCATTAGCCCAATGTCGT
* *
2505567 TGGCCTTGAATCAGAACATTGGTCCATTTTTCCCTTAGCCCAATGTCGT
1 TGGCCTTGAATCAGAACATTGG-CCATCTTT-CATTAGCCCAATGTCGT
2505616 TGGCCTTGAAT
1 TGGCCTTGAAT
2505627 TGGCACATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 19 0.37
47 6 0.12
49 26 0.51
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (47 bp):
TGGCCTTGAATCAGAACATTGGCCATCTTTCATTAGCCCAATGTCGT
Found at i:2506407 original size:31 final size:32
Alignment explanation
Indices: 2506364--2506428 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 32
2506354 TTTTACCCAA
* *
2506364 ATGTATCGATACATTTTTCAATGTATTGATAC
1 ATGTATCGATACATTCTTCAACGTATTGATAC
2506396 ATGTATC-ATACATTCTTCAACGTATTGATAC
1 ATGTATCGATACATTCTTCAACGTATTGATAC
2506427 AT
1 AT
2506429 CTAGTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (32 bp):
ATGTATCGATACATTCTTCAACGTATTGATAC
Found at i:2507326 original size:20 final size:22
Alignment explanation
Indices: 2507286--2507326 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2507276 TAGCCTTTGA
*
2507286 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
2507308 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
2507327 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:2509674 original size:20 final size:21
Alignment explanation
Indices: 2509649--2509699 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
2509639 TAAGGTCTAA
*
2509649 TATCGATACATTCACTT-ATG
1 TATCGATACATTAACTTGATG
*
2509669 TATCGATACATTAACTTGTTG
1 TATCGATACATTAACTTGATG
2509690 TATCGATACA
1 TATCGATACA
2509700 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
TATCGATACATTAACTTGATG
Found at i:2510517 original size:32 final size:32
Alignment explanation
Indices: 2510476--2510542 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
2510466 ACAAATAGTA
* *
2510476 AATGTATCGATACATAAGTGTTGTATTGATAC
1 AATGTATCGATACATAAGTGTTATATCGATAC
2510508 AATGTATCGATACATAAGTGTTATATCGATAC
1 AATGTATCGATACATAAGTGTTATATCGATAC
2510540 AAT
1 AAT
2510543 ATACGGATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTATATCGATAC
Found at i:2510536 original size:19 final size:18
Alignment explanation
Indices: 2510480--2510540 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
2510470 ATAGTAAATG
2510480 TATCGATACATAAGTGTT
1 TATCGATACATAAGTGTT
*
2510498 GTATTGATAC--AA-TG--
1 -TATCGATACATAAGTGTT
2510512 TATCGATACATAAGTGTT
1 TATCGATACATAAGTGTT
2510530 ATATCGATACA
1 -TATCGATACA
2510541 ATATACGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 8 0.24
15 2 0.06
16 4 0.12
17 2 0.06
19 18 0.53
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (18 bp):
TATCGATACATAAGTGTT
Found at i:2510552 original size:32 final size:32
Alignment explanation
Indices: 2510480--2510553 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
2510470 ATAGTAAATG
* * *
2510480 TATCGATACATAAGTGTTGTATTGATACAATG
1 TATCGATACATAAGTGTTATATCGATACAATA
2510512 TATCGATACATAAGTGTTATATCGATACAATA
1 TATCGATACATAAGTGTTATATCGATACAATA
2510544 TA-CGGATACA
1 TATC-GATACA
2510554 AAGCTTCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 1 0.03
32 37 0.97
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (32 bp):
TATCGATACATAAGTGTTATATCGATACAATA
Found at i:2518725 original size:13 final size:13
Alignment explanation
Indices: 2518707--2518732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2518697 TACACCAAGT
2518707 ATGTATCGATACA
1 ATGTATCGATACA
2518720 ATGTATCGATACA
1 ATGTATCGATACA
2518733 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2518730 original size:32 final size:33
Alignment explanation
Indices: 2518689--2518752 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2518679 TAGCCAAACT
**
2518689 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
2518721 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
2518753 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:2520990 original size:21 final size:21
Alignment explanation
Indices: 2520952--2520996 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2520942 TTGCAAGTTG
*
2520952 AAATAAAGAACTTGGCTAATGA
1 AAATAAAGAACTTAGCTAA-GA
*
2520974 AAATAATGAA-TTAGCTAAGA
1 AAATAAAGAACTTAGCTAAGA
2520994 AAA
1 AAA
2520997 ATATAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.56, C:0.07, G:0.16, T:0.22
Consensus pattern (21 bp):
AAATAAAGAACTTAGCTAAGA
Found at i:2524867 original size:20 final size:20
Alignment explanation
Indices: 2524824--2524869 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2524814 AAATCTTTTG
2524824 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2524845 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2524865 CAAAA
1 CAAAA
2524870 CCAGCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2527292 original size:13 final size:13
Alignment explanation
Indices: 2527274--2527299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2527264 TATAGCAAGT
2527274 ATGTATCGATACA
1 ATGTATCGATACA
2527287 ATGTATCGATACA
1 ATGTATCGATACA
2527300 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2533638 original size:20 final size:20
Alignment explanation
Indices: 2533613--2533705 Score: 132
Period size: 20 Copynumber: 4.7 Consensus size: 20
2533603 TTTTGTAGAC
*
2533613 ATGTATCAATACATTCACTT
1 ATGTATCGATACATTCACTT
* *
2533633 ATGTATTGATATATTCACTT
1 ATGTATCGATACATTCACTT
*
2533653 ATGTATTGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
2533673 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTT
*
2533693 ATTTATCGATACA
1 ATGTATCGATACA
2533706 AATCATAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:2533819 original size:21 final size:21
Alignment explanation
Indices: 2533743--2533811 Score: 129
Period size: 21 Copynumber: 3.3 Consensus size: 21
2533733 GTTGGGACCT
2533743 TGTATCAATGCATTCAAGAAA
1 TGTATCAATGCATTCAAGAAA
*
2533764 TGTATCGATGCATTCAAGAAA
1 TGTATCAATGCATTCAAGAAA
2533785 TGTATCAATGCATTCAAGAAA
1 TGTATCAATGCATTCAAGAAA
2533806 TGTATC
1 TGTATC
2533812 GATACATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (21 bp):
TGTATCAATGCATTCAAGAAA
Found at i:2538732 original size:57 final size:56
Alignment explanation
Indices: 2538640--2538774 Score: 155
Period size: 58 Copynumber: 2.3 Consensus size: 56
2538630 TCTAAATTAT
* * **
2538640 TCTAAAATGCATAAAAATTGAATAATAGTCCCTAAATCATG-AAAATGGCTAAAATGAA
1 TCTAAAATGCAT-GAAATT-AATAATAATCCCTAAATCATGAAAAATGAATAAAATG-A
*
2538698 TCTAAAATGCATGAAATTATATAATAATCTCTAAATCATGAAAAATGAATAAAATGA
1 TCTAAAATGCATGAAATTA-ATAATAATCCCTAAATCATGAAAAATGAATAAAATGA
* *
2538755 CCATAAAATGTATGAAATTA
1 TC-TAAAATGCATGAAATTA
2538775 CAAAATGTAG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
56 1 0.01
57 25 0.37
58 41 0.61
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (56 bp):
TCTAAAATGCATGAAATTAATAATAATCCCTAAATCATGAAAAATGAATAAAATGA
Found at i:2539806 original size:167 final size:164
Alignment explanation
Indices: 2539508--2540100 Score: 581
Period size: 167 Copynumber: 3.6 Consensus size: 164
2539498 ATTTATCTCA
* *
2539508 TAATTTAGTTTTTAAAAATTCATTCATTTTCATGAGCTTTTT-A-TTTTTTCCTTGAGATTCTTT
1 TAATTTAGTTTTCAAAAATTCATTCATTTTCATGAG-TTTTTGATTTTTTTCCTTGAAATTC-TT
* * ** * * *
2539571 TTTTTTCGAAATAC-AGTATTTTCTATTCTG-AAATTTTTTCGGGAAGATTTTTCTTGGTTTTCA
64 TTTTTT--AAATACGA-TGTTTTCTACTCTGTAAATTTTTTTAGAAAGATTTTTCTTAGTTTTTA
* * *
2539634 ATTTTTAAAATTCATCAAGCATCATTATTTAATTTATAT
126 ATTTTTAAAATTTATCAAACATTATTATTTAATTTATAT
* *
2539673 TAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCCTTTAAACTTCCCT
1 TAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCCTTGAAA-TT--CT
* *
2539738 TTTTTTTATATACGATGTTTTCTACTCCGTAAATTTTTTTAGAAAGATTTTTCTTAGTTTTTAAT
63 TTTTTTTAAATACGATGTTTTCTACTCTGTAAATTTTTTTAGAAAGATTTTTCTTAGTTTTTAAT
* * * * *
2539803 TTTTAAAATTTACCAAATATTATCAATTATTTTATAT
128 TTTTAAAATTTATCAAACATTATTATTTAATTTATAT
* * * *
2539840 TAATTTAGTTTTCAAAAATTAATTCA-TTTCATGAGCTTTTGATTTGTTTCCTTGAAA---ATTT
1 TAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCCTTGAAATTCTTTT
* * * * *
2539901 TTTGAAATACGGTGTTTTTTACTCTGTAAA-TTTTTTCGAGAGGATTTTT-TTA-TTTTTAATTT
66 TTTTAAATACGATGTTTTCTACTCTGTAAATTTTTTTAGA-AAGATTTTTCTTAGTTTTTAATTT
2539963 TTAAAATTTATCAAACATTATTATTT-ATTTCATAT
130 TTAAAATTTATCAAACATTATTATTTAATTT-ATAT
* * *
2539998 TAGTTT-GTTTTTCAAAGAAATTCATTCATTTTCGTGAGTTTTTTA-TTTTTT--TTGAAACTTT
1 TAATTTAG-TTTTC-AA-AAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCCTTGAAA--TT
* * * *
2540059 CTTTTTTTCGAAATAC-ATTATTTTTTACTCTGTAAATATTTT
61 CTTTTTTT-TAAATACGA-TGTTTTCTACTCTGTAAATTTTTT
2540101 CGAGGGGATT
Statistics
Matches: 358, Mismatches: 49, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
157 4 0.01
158 52 0.15
159 13 0.04
160 51 0.14
161 13 0.04
163 6 0.02
164 29 0.08
165 39 0.11
166 56 0.16
167 86 0.24
168 8 0.02
169 1 0.00
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (164 bp):
TAATTTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCCTTGAAATTCTTTT
TTTTAAATACGATGTTTTCTACTCTGTAAATTTTTTTAGAAAGATTTTTCTTAGTTTTTAATTTT
TAAAATTTATCAAACATTATTATTTAATTTATAT
Found at i:2540112 original size:119 final size:118
Alignment explanation
Indices: 2539989--2540220 Score: 315
Period size: 119 Copynumber: 1.9 Consensus size: 118
2539979 ATTATTATTT
* * * *
2539989 ATTTCATATTAGTTTGTTTTTCAAAGAAATTCATTCATTTTCGTGAGTTTTTTATTTTTT-TTGA
1 ATTTCATATTAATTCGGTTTTC-AA-AAATTCATTCATTTTCATGAGTTTTTTATTTTTTCTTGA
* * *
2540053 AACTTTCTTTTTTTC-GAAATACATTATTTTTTACTCTGTAAATATTTTCGAGGGG
64 AAC-TTCATTTTTTCTGAAATACAGTATTTTCTACTCTGTAAATATTTTCGAGGGG
* *
2540108 ATTTCATATTAATTCGGTTTTCAAAAATTTATTCATTTTTATGAGTTTTTTATTTTTTCCTTGAA
1 ATTTCATATTAATTCGGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTT-CTTGAA
* *
2540173 ACTTCATTTTTTCTGAAATACGGTATTTTCTACTCTGTAAATTTTTTC
65 ACTTCATTTTTTCTGAAATACAGTATTTTCTACTCTGTAAATATTTTC
2540221 AAAAAATTTT
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
117 31 0.31
118 12 0.12
119 56 0.57
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (118 bp):
ATTTCATATTAATTCGGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTTCTTGAAA
CTTCATTTTTTCTGAAATACAGTATTTTCTACTCTGTAAATATTTTCGAGGGG
Found at i:2540287 original size:165 final size:164
Alignment explanation
Indices: 2540108--2541322 Score: 1326
Period size: 166 Copynumber: 7.5 Consensus size: 164
2540098 TTTCGAGGGG
* * *
2540108 ATTTCATATTAATTCGGTTTTCAAAAATTTATTCATTTTTATGAGTTTTTTATTTTTTCCTTGAA
1 ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTTCCTTGAA
* * **
2540173 ACTTCATTTTTTCTGAAATACGGTATTTTCTACTCTGTAAATTTTTTCAAAAAATTTTT-TTGGG
66 ACTTC-TTTTTTCTGAAATACGGTATTTTCTACTCCGTAAATTTTTTCAGAGGATTTTTCTT-GG
* * *
2540237 TTTTCAATTTTTAAAAATCATCAAATATCATCATTT
129 TTTTCAATTTTTAAAATTCATCAAACATCATTATTT
* * * * *
2540273 GTTTCATATTAATTCACTTTTCAGAAATTCATTCA-TTTCATAAGTTTTTTATTTTTTTCTTTG-
1 ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTA-TTTTTTCCTTGA
* ** * *
2540336 AA----TTTTTT-TAAAATACATTATTTTTTACTCCGTAAATTTTTTCGAGAGGATTTTTATTGG
65 AACTTCTTTTTTCTGAAATACGGTATTTTCTACTCCGTAAATTTTTTC-AGAGGATTTTTCTTGG
2540396 TTTTCAATTTTTAAAATTCATCAAACATCATTATTT
129 TTTTCAATTTTTAAAATTCATCAAACATCATTATTT
* *
2540432 ATTTCATATTAATTTAGTTTTCAAAAATTCAATCATTTTCATGAG--------TTTTTCCTTGAA
1 ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTTCCTTGAA
* * * *
2540489 A----TTTTTTCTGAAATACGGTGTTTGCTACT-CGTAAATTTTTTCAAGGGGATTTTTCTTAGT
66 ACTTCTTTTTTCTGAAATACGGTATTTTCTACTCCGTAAATTTTTTC-AGAGGATTTTTCTTGGT
2540549 TTTCAATTTTTAAAATTCATCAAACATCATTATTT
130 TTTCAATTTTTAAAATTCATCAAACATCATTATTT
* * *
2540584 ATTTCATATTAATTCAATTTTCAAAAATTTATTCATTTTCAATCA-TTTTTTATTTTTTTCCTTG
1 ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTC-ATGAGTTTTTTA-TTTTTTCCTTG
* * * *
2540648 AAATTTTGCTTTTTTC-GAAATACAGT-TTTTCTACTCCGTAAATTTTCTCGGGAGGATTTTTCT
64 AAA-CTT-CTTTTTTCTGAAATACGGTATTTTCTACTCCGTAAATTTTTTC-AGAGGATTTTTCT
*
2540711 TTGTTTTCAATTTTTAAAATTCATCAAA-ATCATTATTT
126 TGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTT
* *
2540749 ATTTCATATTAATTCAGTTTTC-AAAATTCATTCATTTTCATTAATTTTTTATTTTTTCCTTGAA
1 ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTTCCTTGAA
* * * * **
2540813 ACTTCCCTTTTTCTGAAATACAGTATTTTATATTTTGTAAATTTTTTC-GAGGGATTTTTCTTGG
66 ACTT-CTTTTTTCTGAAATACGGTATTTTCTACTCCGTAAATTTTTTCAGA-GGATTTTTCTTGG
*
2540877 TTTTCAATTTTTAAAATTCACCAAA-ATCATTATTT
129 TTTTCAATTTTTAAAATTCATCAAACATCATTATTT
* *
2540912 ATTTCATAATAATTCAGTTATCAAAAATTCATTCATTTTCATGAGTTTTTGATATTTTTTCCTTG
1 ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTT--TATTTTTTCCTTG
* ** *
2540977 AAACTTTCCTTTTTTC-GATATACGGT-TTTTCTACTTTGTAAATTTTTTC-GAGGTGATTATTC
64 AAAC-TT-CTTTTTTCTGAAATACGGTATTTTCTACTCCGTAAATTTTTTCAGA-G-GATTTTTC
* * **
2541039 TTTGTTTTCAATTTTTAAAATTCATCAAATAGT-ATCCTTT
125 TTGGTTTTCAATTTTTAAAATTCATCAAACA-TCATTATTT
* * * * * * * *
2541079 ATTTTATATTAATTTAGTTGTCAAAATTTCATTTATTTTCATGAGATTTTGATTTTTTTCTTGAA
1 ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTTCCTTGAA
* * * ** * * *
2541144 ATTCTCTTTTTTTCTAAAATATGGCGTTTTCTACTCCGTAAATTTTTTCAGGGCGAGTTTTCTTA
66 ACT-TC-TTTTTTCTGAAATACGGTATTTTCTACTCCGTAAATTTTTTCAGAG-GATTTTTCTTG
2541209 G-TTTCAATTTTTAAAATTCATCAAACATCATTATTT
128 GTTTTCAATTTTTAAAATTCATCAAACATCATTATTT
** * *
2541245 ATTTCATATTAATTTGGTTTTCAAAAATTCATTCATTTTCATGATTTTTTTATTTTCTTCCTTAA
1 ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTATTTT-TTCCTTGA
2541310 AACTTCTCTTTTT
65 AACTTCT-TTTTT
2541323 TTGAGAAACT
Statistics
Matches: 898, Mismatches: 110, Indels: 83
0.82 0.10 0.08
Matches are distributed among these distances:
151 9 0.01
152 106 0.12
153 18 0.02
158 30 0.03
159 79 0.09
160 10 0.01
161 13 0.01
162 11 0.01
163 93 0.10
164 84 0.09
165 128 0.14
166 209 0.23
167 106 0.12
168 2 0.00
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (164 bp):
ATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTTCCTTGAA
ACTTCTTTTTTCTGAAATACGGTATTTTCTACTCCGTAAATTTTTTCAGAGGATTTTTCTTGGTT
TTCAATTTTTAAAATTCATCAAACATCATTATTT
Found at i:2540352 original size:277 final size:273
Alignment explanation
Indices: 2539831--2540388 Score: 653
Period size: 277 Copynumber: 2.0 Consensus size: 273
2539821 ATTATCAATT
* *
2539831 ATTTTATATTAATTTAGTTTTCAAAAATTAATTCATTTCATGAGCTTTTGATTTGTTTCCTTGAA
1 ATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTCATGAGCTTTTGATTTGTTTCCTTGAA
* * * ** *
2539896 AATTTTTTGAAATACGGTGTTTTTTACTCTGTAAATTTTTTCGAGAGGATTTTTTTATTTTTAAT
66 AATTTTTTGAAATACGGTATTTTCTACTCTGTAAATTTTTTCGAAAAAATTTTTTTATTTTCAAT
* * * * * ***
2539961 TTTTAAAATTTATCAAACATTATTATTTATTTCATATTAGTTTGTTTTTCAAAGAAATTCATTCA
131 TTTTAAAAATCATCAAACATCATCATTTATTTCATATTAATTCACTTTTC-AAGAAATTCATTCA
* * * * *
2540026 TTTTCGTGAGTTTTTTATTTTTTTTGAAACTTTCTTTTTTTCGAAATACATTATTTTTTACTCTG
195 TTTTCATAAGTTTTTTATTTTTTTT---ACTTTATTTTTTTCAAAATACATTATTTTTTACTCCG
*
2540091 TAAATATTTTCGAGGGG
257 TAAATATTTTCGAGAGG
* * * * *
2540108 ATTTCATATTAATTCGGTTTTCAAAAATTTATTCATTTTTATGAGTTTTTTATTT-TTTCCTTGA
1 ATTTCATATTAATTCAGTTTTCAAAAATTAATTCA-TTTCATGAGCTTTTGATTTGTTTCCTTGA
2540172 AACTTCATTTTTTCTGAAATACGGTATTTTCTACTCTGTAAATTTTTTC-AAAAAATTTTTTTGG
65 AA----A-TTTTT-TGAAATACGGTATTTTCTACTCTGTAAATTTTTTCGAAAAAATTTTTTT--
* * *
2540236 GTTTTCAATTTTTAAAAATCATCAAATATCATCATTTGTTTCATATTAATTCACTTTTC-AGAAA
122 ATTTTCAATTTTTAAAAATCATCAAACATCATCATTTATTTCATATTAATTCACTTTTCAAGAAA
2540300 TTCATTCA-TTTCATAAGTTTTTTA-TTTTTTT-CTTTGAATTTTTTT-AAAATACATTATTTTT
187 TTCATTCATTTTCATAAGTTTTTTATTTTTTTTACTTT--ATTTTTTTCAAAATACATTATTTTT
*
2540361 TACTCCGTAAATTTTTTCGAGAGG
250 TACTCCGTAAATATTTTCGAGAGG
2540385 ATTT
1 ATTT
2540389 TTATTGGTTT
Statistics
Matches: 239, Mismatches: 31, Indels: 22
0.82 0.11 0.08
Matches are distributed among these distances:
276 4 0.02
277 82 0.34
278 23 0.10
280 7 0.03
281 15 0.06
282 28 0.12
283 33 0.14
284 47 0.20
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (273 bp):
ATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTCATGAGCTTTTGATTTGTTTCCTTGAA
AATTTTTTGAAATACGGTATTTTCTACTCTGTAAATTTTTTCGAAAAAATTTTTTTATTTTCAAT
TTTTAAAAATCATCAAACATCATCATTTATTTCATATTAATTCACTTTTCAAGAAATTCATTCAT
TTTCATAAGTTTTTTATTTTTTTTACTTTATTTTTTTCAAAATACATTATTTTTTACTCCGTAAA
TATTTTCGAGAGG
Found at i:2540412 original size:443 final size:441
Alignment explanation
Indices: 2539665--2540481 Score: 1124
Period size: 442 Copynumber: 1.8 Consensus size: 441
2539655 TCATTATTTA
*
2539665 ATTTATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCCTTTAA
1 ATTTATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCCTTGAA
* * * * * *
2539730 ACTTCCCTTTTTTTTATATACGATGTTTTCTACTCCGTAAATTTTTTTAGAAAGATTTTTCTTAG
66 ACTTCCATTTTTTTGAAATACGATATTTTCTACTCCGTAAATTTTTTCAGAAAAATTTTTCTTAG
* * * * * * *
2539795 TTTTTAATTTTTAAAATTTACCAAATATTATCAATTATTTTATATTAATTTAGTTTTCAAAAATT
131 TTTTCAATTTTTAAAAATCACCAAATATCATCAATTATTTCATATTAATTCACTTTTCAAAAATT
* * * *
2539860 AATTCATTTCATGAGCTTTTGATTTGTTTCCTTGAAAATTTTTTGAAATACGGTGTTTTTTACTC
196 AATTCATTTCATAAGCTTTTGATTTGTTTCCTTGAAAATTTTTTAAAATACAGTATTTTTTACTC
* * * *
2539925 TGTAAATTTTTTCGAGAGGATTTTTTTATTTTTAATTTTTAAAATTTATCAAACATTATTATTTA
261 CGTAAATTTTTTCGAGAGGATTTTTTTATTTTCAATTTTTAAAATTCATCAAACATCATTATTTA
* * *
2539990 TTTCATATTAGTTT-GTTTTTCAAAGAAATTCATTCATTTTCGTGAGTTTTTTATTTTTTTTGAA
326 TTTCATATTAATTTAG-TTTTC-AA-AAATTCAATCATTTTCATGAGTTTTTTATTTTTTTTGAA
2540054 ACTTTCTTTTTTTCGAAATACATTATTTTTTACTCTGTAAATATTTTCGAGGGG
388 ACTTTCTTTTTTTCGAAATACATTATTTTTTACTCTGTAAATATTTTCGAGGGG
* * * *
2540108 ATTTCATATTAATTCGGTTTTCAAAAATTTATTCATTTTTATGAGTTTTTTA-TTTTTTCCTTGA
1 ATTT-ATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCCTTGA
* *
2540172 AACTT-CATTTTTTCTGAAATACGGTATTTTCTACTCTGTAAATTTTTTCA-AAAAATTTTT-TT
65 AACTTCCATTTTTT-TGAAATACGATATTTTCTACTCCGTAAATTTTTTCAGAAAAATTTTTCTT
* * * * *
2540234 GGGTTTTCAATTTTTAAAAATCATCAAATATCATCATTTGTTTCATATTAATTCACTTTTCAGAA
129 -AGTTTTCAATTTTTAAAAATCACCAAATATCATCAATTATTTCATATTAATTCACTTTTCAAAA
* * * * * * *
2540299 ATTCATTCATTTCATAAGTTTTTTATTTTTTTCTTTG-AATTTTTTTAAAATACATTATTTTTTA
193 ATTAATTCATTTCATAAGCTTTTGATTTGTTTCCTTGAAAATTTTTTAAAATACAGTATTTTTTA
*
2540363 CTCCGTAAATTTTTTCGAGAGGATTTTTATTGGTTTTCAATTTTTAAAATTCATCAAACATCATT
258 CTCCGTAAATTTTTTCGAGAGGATTTTT-TT-ATTTTCAATTTTTAAAATTCATCAAACATCATT
2540428 ATTTATTTCATATTAATTTAGTTTTCAAAAATTCAATCATTTTCATGAGTTTTT
321 ATTTATTTCATATTAATTTAGTTTTCAAAAATTCAATCATTTTCATGAGTTTTT
2540482 CCTTGAAATT
Statistics
Matches: 324, Mismatches: 44, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
441 75 0.23
442 103 0.32
443 102 0.31
444 44 0.14
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (441 bp):
ATTTATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCCTTGAA
ACTTCCATTTTTTTGAAATACGATATTTTCTACTCCGTAAATTTTTTCAGAAAAATTTTTCTTAG
TTTTCAATTTTTAAAAATCACCAAATATCATCAATTATTTCATATTAATTCACTTTTCAAAAATT
AATTCATTTCATAAGCTTTTGATTTGTTTCCTTGAAAATTTTTTAAAATACAGTATTTTTTACTC
CGTAAATTTTTTCGAGAGGATTTTTTTATTTTCAATTTTTAAAATTCATCAAACATCATTATTTA
TTTCATATTAATTTAGTTTTCAAAAATTCAATCATTTTCATGAGTTTTTTATTTTTTTTGAAACT
TTCTTTTTTTCGAAATACATTATTTTTTACTCTGTAAATATTTTCGAGGGG
Found at i:2541942 original size:9 final size:9
Alignment explanation
Indices: 2541905--2541955 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
2541895 CTCAGCTGAA
2541905 AAAAAAAAG
1 AAAAAAAAG
*
2541914 CAAAAAAAG
1 AAAAAAAAG
* *
2541923 -AGACAAA-
1 AAAAAAAAG
*
2541930 AAAAGAAAG
1 AAAAAAAAG
2541939 AAAAAAAAG
1 AAAAAAAAG
2541948 AAAAAAAA
1 AAAAAAAA
2541956 AGGGAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 10 0.29
9 24 0.71
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:2541962 original size:12 final size:12
Alignment explanation
Indices: 2541902--2541964 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
2541892 CAACTCAGCT
2541902 GAAAAAAAAA-A
1 GAAAAAAAAAGA
*
2541913 G-CAAAAAAAGA
1 GAAAAAAAAAGA
*
2541924 GACAAAAAAAGA
1 GAAAAAAAAAGA
2541936 -AAGAAAAAAA-A
1 GAA-AAAAAAAGA
*
2541947 GAAAAAAAAAGG
1 GAAAAAAAAAGA
2541959 GAAAAA
1 GAAAAA
2541965 TAGTGAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
10 7 0.16
11 12 0.27
12 25 0.57
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAAGA
Found at i:2541962 original size:25 final size:25
Alignment explanation
Indices: 2541903--2541957 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
2541893 AACTCAGCTG
*
2541903 AAAAAAA-AAAGCAAAAAAAGAGAC
1 AAAAAAAGAAAGCAAAAAAAGAGAA
2541927 AAAAAAAGAAAG-AAAAAAA-AGAA
1 AAAAAAAGAAAGCAAAAAAAGAGAA
2541950 AAAAAAAG
1 AAAAAAAG
2541958 GGAAAAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 11 0.38
24 14 0.48
25 4 0.14
ACGTcount: A:0.84, C:0.04, G:0.13, T:0.00
Consensus pattern (25 bp):
AAAAAAAGAAAGCAAAAAAAGAGAA
Found at i:2541964 original size:10 final size:10
Alignment explanation
Indices: 2541904--2541957 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
2541894 ACTCAGCTGA
2541904 AAAAAAAAAG
1 AAAAAAAAAG
*
2541914 CAAAAAAAGAG
1 -AAAAAAAAAG
*
2541925 ACAAAAAAAGAA
1 A-AAAAAAA-AG
2541937 AGAAAAAAAAG
1 A-AAAAAAAAG
2541948 AAAAAAAAAG
1 AAAAAAAAAG
2541958 GGAAAAATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 10 0.28
11 17 0.47
12 9 0.25
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:2542691 original size:16 final size:16
Alignment explanation
Indices: 2542670--2542700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2542660 TTTGGGTATG
*
2542670 TTTTGTTTGACATATT
1 TTTTGTGTGACATATT
2542686 TTTTGTGTGACATAT
1 TTTTGTGTGACATAT
2542701 ATTTAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.16, T:0.58
Consensus pattern (16 bp):
TTTTGTGTGACATATT
Found at i:2542858 original size:15 final size:15
Alignment explanation
Indices: 2542838--2542868 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2542828 AATTAAATTT
*
2542838 TAATCATTTTTTTTC
1 TAATCATTTTTATTC
2542853 TAATCATTTTTATTC
1 TAATCATTTTTATTC
2542868 T
1 T
2542869 TATAGGCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATCATTTTTATTC
Found at i:2544021 original size:155 final size:154
Alignment explanation
Indices: 2543593--2544845 Score: 1428
Period size: 155 Copynumber: 8.1 Consensus size: 154
2543583 TTATTAGAGA
* * * *
2543593 TATTTTTGTAATTTTCTAGAACCAACTCCTAAGTCGTCGCCGGGT-TCGCTTTTATGTCGAAGGT
1 TATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCGCC-GGTCT-GCTTTTATGCCGAAGGT
* *
2543657 AGATATTTAGGATAGGTTCATCCCTTTTATGAATCTTTTTAAG-CCTTTTAGGGGTATCGGGTAT
64 AGATATTTAGGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCC-TTTAGGGGTATCGAGTAC
*
2543721 TTTTACATCAAAGGTAT-CCTCTAGGGG
128 TTTTACGTCAAAGGTATCCCT-TAGGGG
* * * * ***
2543748 TATTTTTGTAATTTTATT-GAACCAACTCCTAGGTCATCGTCGG---G-TTCGTATGATAAAGGT
1 TATTTTCGTAATTTT-TTAGAACCAACTCCTAGGTCGTCGCCGGTCTGCTT-TTATGCCGAAGGT
* * * * *
2543808 AGATATTTATGATGGGTTTATCCCTTTTATGAAT-TTTCTTAAGTCCTTTAGGGATATCGTGTAC
64 AGATATTTAGGATAGGTTCATCCCTTTTATGAATCTTT-TTAAGTCCTTTAGGGGTATCGAGTAC
*
2543872 TTTTACGTCAAAGGTCTCCCTTAGGGG
128 TTTTACGTCAAAGGTATCCCTTAGGGG
* * *
2543899 TATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCGCCGAGTCTG-TATCTATGTCAAAGGT
1 TATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCGCCG-GTCTGCT-TTTATGCCGAAGGT
* * * * *
2543963 AGATATTTATGATAGTTTTATCGCTTTTATGAATCCTTTTAAGTCCTTTAGGGGTATCGTA-TAC
64 AGATATTTAGGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCG-AGTAC
* *
2544027 TTTTACGTCAAAAGTATCCCGTAGGGG
128 TTTTACGTCAAAGGTATCCCTTAGGGG
*
2544054 TATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTTGCCTGGTCTGCTTTTATGCCGAAGGTA
1 TATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCGCC-GGTCTGCTTTTATGCCGAAGGTA
** *
2544119 GATATTTAGGATAGGTTCATTACTTTTATGAATCTTTTTAAGTCCTTTAGGAGTATCGAGTACTT
65 GATATTTAGGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCGAGTACTT
* *
2544184 TTACGTCAAAGGTATCCCCTAAGGG
130 TTACGTCAAAGGTATCCCTTAGGGG
* * * * *
2544209 TATTTTCATAATTTTTTAGAACCAACTCCTAGGTTGTTGCATGGTCTGCTTTTATGCCGAAGGTG
1 TATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCGC-CGGTCTGCTTTTATGCCGAAGGTA
* *
2544274 GATATTTAAGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCAAGTACTT
65 GATATTTAGGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCGAGTACTT
* *
2544339 TTACGTCAAAAGTATCCCCTAGGGG
130 TTACGTCAAAGGTATCCCTTAGGGG
* *
2544364 TATTTTCATAATTTTTTTAGAACCAACTCCTAGGTCGTCGACTGGTCTGCTTTTATGCCGAAGGT
1 TATTTTCGTAA-TTTTTTAGAACCAACTCCTAGGTCGTCG-CCGGTCTGCTTTTATGCCGAAGGT
* * * *
2544429 GGATATTTAGCATAGGTTCATCCTTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCAAGTACT
64 AGATATTTAGGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCGAGTACT
2544494 TTTACGTCAAAGGTATCCCTTAGGGG
129 TTTACGTCAAAGGTATCCCTTAGGGG
* * * * *
2544520 TATTTTCATAATTTTTTAGAACCAACTCTTAGGTCATCGCCGGGTC-CCTTTTTATGCTGAAGGT
1 TATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCGCC-GGTCTGC-TTTTATGCCGAAGGT
* * *
2544584 AGATATTTAGGATAGGTTTATCCCTTTTATGAATCTTTTTAAGTCTTTTAGGGGTATC-AGGCAC
64 AGATATTTAGGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCGA-GTAC
* * **
2544648 TTTTATGTCGAAA-GTATCTCAAAGGGG
128 TTTTACGTC-AAAGGTATCCCTTAGGGG
* * * * * * * *
2544675 CATTTTGGTAATTTTTTAGAATCGAGC-CCTAAGTAGTCACTAGGT-TCGCTTTTATGCCGAAGG
1 TATTTTCGTAATTTTTTAGAA-CCAACTCCTAGGTCGTCGC-CGGTCT-GCTTTTATGCCGAAGG
* ** * * *
2544738 TAGTTATTTAGGATAGGTTTGT-CCTATCTAT-AATCCTTTTTAACTCCTTTAGGGGTAT-TAGG
63 TAGATATTTAGGATAGGTTCATCCCT-TTTATGAAT-CTTTTTAAGTCCTTTAGGGGTATCGA-G
* *
2544800 TACTTTTACGTCAAAGTTATCCCTTAAGGG
125 TACTTTTACGTCAAAGGTATCCCTTAGGGG
* *
2544830 CATTTTCATAATTTTT
1 TATTTTCGTAATTTTT
2544846 CTTGAACTTC
Statistics
Matches: 962, Mismatches: 105, Indels: 62
0.85 0.09 0.05
Matches are distributed among these distances:
150 7 0.01
151 118 0.12
152 6 0.01
154 15 0.02
155 656 0.68
156 159 0.17
157 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (154 bp):
TATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCGCCGGTCTGCTTTTATGCCGAAGGTAG
ATATTTAGGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCGAGTACTTT
TACGTCAAAGGTATCCCTTAGGGG
Found at i:2544539 original size:466 final size:462
Alignment explanation
Indices: 2543601--2544845 Score: 1504
Period size: 466 Copynumber: 2.7 Consensus size: 462
2543591 GATATTTTTG
* * *
2543601 TAATTTTCTAGAACCAACTCCTAAGTCGTCGCCGGGT-TCGCTTTTATGTCGAAGGTAGATATTT
1 TAATTTTTTAGAACCAACTCCTAGGTCGTCGCCGGGTCT-GCTTTTATGCCGAAGGTAGATATTT
* * *
2543665 AGGATAGGTTCATCCCTTTTATGAATCTTTTTAAG-CCTTTTAGGGGTATCGGGTATTTTTACAT
65 AGGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCC-TTTAGGGGTATCGAGTACTTTTACGT
* * * * *
2543729 CAAAGGTATCCTCTAGGGGTATTTTTGTAATTTTATT-GAACCAACTCCTAG-GTCATCGTCGGG
129 CAAAGGTATCCTCTAAGGGTATTTTCGTAATTTT-TTAGAACCAACTCCTAGTGTCATGGTCTGC
* *** * *
2543792 TTCGTATGATAAAGGTAGATATTTATGATGGGTTTATCCCTTTTATGAAT-TTTCTTAAGTCCTT
193 TT-TTATGCCGAAGGTAGATATTTAAGATAGGTTTATCCCTTTTATGAATCTTT-TTAAGTCCTT
* ** * * *
2543856 TAGGGATATCGTGTACTTTTACGTCAAAGGTCTCCCTTAGGGGTATTTTCGTAA-TTTTTTAGAA
256 TAGGGGTATCAAGTACTTTTACGTCAAAAGTATCCCTTAGGGGTATTTTCATAATTTTTTTAGAA
* * *
2543920 CCAACTCCTAGGTCGTCGCCGAGTCTGTATCTATGTCAAAGGTAGATATTTATGATAGTTTTATC
321 CCAACTCCTAGGTCGTCGCCGAGTCTGTATCTATGCCAAAGGTAGATATTTATGATAGGTTCATC
*
2543985 GCTTTTATGAATCCTTTTAAGTCCTTTAGGGGTATCGTATACTTTTACGTCAAAAGTATCCCGTA
386 GCTTTTATGAATCCTTTTAAGTCCTTTAGGGGTATCGAATACTTTTACGTCAAAAGTATCCCGTA
*
2544050 GGGGTATTTTCG
451 GGGGTATTTTCA
* *
2544062 TAATTTTTTAGAACCAACTCCTAGGTCGTTGCCTGGTCTGCTTTTATGCCGAAGGTAGATATTTA
1 TAATTTTTTAGAACCAACTCCTAGGTCGTCGCCGGGTCTGCTTTTATGCCGAAGGTAGATATTTA
** *
2544127 GGATAGGTTCATTACTTTTATGAATCTTTTTAAGTCCTTTAGGAGTATCGAGTACTTTTACGTCA
66 GGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCGAGTACTTTTACGTCA
* *
2544192 AAGGTATCCCCTAAGGGTATTTTCATAATTTTTTAGAACCAACTCCTAGGTTGTTGCATGGTCTG
131 AAGGTATCCTCTAAGGGTATTTTCGTAATTTTTTAGAACCAACTCCTA-G-TG-T-CATGGTCTG
* *
2544257 CTTTTATGCCGAAGGTGGATATTTAAGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTT
192 CTTTTATGCCGAAGGTAGATATTTAAGATAGGTTTATCCCTTTTATGAATCTTTTTAAGTCCTTT
*
2544322 AGGGGTATCAAGTACTTTTACGTCAAAAGTATCCCCTAGGGGTATTTTCATAATTTTTTTAGAAC
257 AGGGGTATCAAGTACTTTTACGTCAAAAGTATCCCTTAGGGGTATTTTCATAATTTTTTTAGAAC
* * * *
2544387 CAACTCCTAGGTCGTCGACTG-GTCTGCT-TTTATGCCGAAGGTGGATATTTA-GCATAGGTTCA
322 CAACTCCTAGGTCGTCG-CCGAGTCTG-TATCTATGCCAAAGGTAGATATTTATG-ATAGGTTCA
* *
2544449 TC-CTTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATC-AAGTACTTTTACGTCAAAGGTATCC
384 TCGC-TTTTATGAATCCTTTTAAGTCCTTTAGGGGTATCGAA-TACTTTTACGTCAAAAGTATCC
*
2544512 CTTAGGGGTATTTTCA
447 CGTAGGGGTATTTTCA
* * * *
2544528 TAATTTTTTAGAACCAACTCTTAGGTCATCGCCGGGTC-CCTTTTTATGCTGAAGGTAGATATTT
1 TAATTTTTTAGAACCAACTCCTAGGTCGTCGCCGGGTCTGC-TTTTATGCCGAAGGTAGATATTT
* * * *
2544592 AGGATAGGTTTATCCCTTTTATGAATCTTTTTAAGTCTTTTAGGGGTATC-AGGCACTTTTATGT
65 AGGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCGA-GTACTTTTACGT
* * * * *
2544656 CGAAA-GTAT-CTCAAAGGGGCATTTTGGTAATTTTTTAGAATCGAGC-CCTAAGTAGTCACTAG
129 C-AAAGGTATCCTCTAA-GGGTATTTTCGTAATTTTTTAGAA-CCAACTCCT-AGT-GTCA-T-G
* * * *
2544718 GT-TCGCTTTTATGCCGAAGGTAGTTATTTAGGATAGGTTTGT-CCTATCTAT-AATCCTTTTTA
187 GTCT-GCTTTTATGCCGAAGGTAGATATTTAAGATAGGTTTATCCCT-TTTATGAAT-CTTTTTA
* * * * *
2544780 ACTCCTTTAGGGGTATTAGGTACTTTTACGTC-AAAGTTATCCCTTAAGGGCATTTTCATAATTT
249 AGTCCTTTAGGGGTATCAAGTACTTTTACGTCAAAAG-TATCCCTTAGGGGTATTTTCATAATTT
2544844 TT
313 TT
2544846 CTTGAACTTC
Statistics
Matches: 679, Mismatches: 77, Indels: 51
0.84 0.10 0.06
Matches are distributed among these distances:
460 2 0.00
461 155 0.23
462 4 0.01
464 3 0.00
465 120 0.18
466 385 0.57
467 10 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (462 bp):
TAATTTTTTAGAACCAACTCCTAGGTCGTCGCCGGGTCTGCTTTTATGCCGAAGGTAGATATTTA
GGATAGGTTCATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGGGTATCGAGTACTTTTACGTCA
AAGGTATCCTCTAAGGGTATTTTCGTAATTTTTTAGAACCAACTCCTAGTGTCATGGTCTGCTTT
TATGCCGAAGGTAGATATTTAAGATAGGTTTATCCCTTTTATGAATCTTTTTAAGTCCTTTAGGG
GTATCAAGTACTTTTACGTCAAAAGTATCCCTTAGGGGTATTTTCATAATTTTTTTAGAACCAAC
TCCTAGGTCGTCGCCGAGTCTGTATCTATGCCAAAGGTAGATATTTATGATAGGTTCATCGCTTT
TATGAATCCTTTTAAGTCCTTTAGGGGTATCGAATACTTTTACGTCAAAAGTATCCCGTAGGGGT
ATTTTCA
Found at i:2546073 original size:59 final size:59
Alignment explanation
Indices: 2545999--2546289 Score: 299
Period size: 58 Copynumber: 5.0 Consensus size: 59
2545989 CGTTGCGACA
*
2545999 CAAAATAGTCCCTAAATCAT-AAAAAGTGATTTAAAA-GATCCTAAAATGCATGAAATTTT
1 CAAAATAGTCCCTAAATCATGAAAAA-TGA-CTAAAATGATCCTAAAATGCATGAAATTTT
* *
2546058 CAAAAT-GATCCCTAAATCATGAAAAATGACTAAAATTATGCTAAAATGCATGAAATTTT
1 CAAAATAG-TCCCTAAATCATGAAAAATGACTAAAATGATCCTAAAATGCATGAAATTTT
* * * * * *
2546117 CAAAATAATCTCTAAATCATGAAAAATGATTAAAAT-AGTCCTAAAATACATCAAA-TTA
1 CAAAATAGTCCCTAAATCATGAAAAATGACTAAAATGA-TCCTAAAATGCATGAAATTTT
* ** * *
2546175 CATAATAGTTTCTAAATCATGAAAAATGACTAAAATGATGCTAAAATGCATGAAA-TTA
1 CAAAATAGTCCCTAAATCATGAAAAATGACTAAAATGATCCTAAAATGCATGAAATTTT
* * * * * * *
2546233 CATAATAGTACCTAAAACATGGAGAATGCCTAAAATG-GCCTTAAAATGCATGAAATT
1 CAAAATAGTCCCTAAATCATGAAAAATGACTAAAATGATCC-TAAAATGCATGAAATT
2546290 GCATAAATAA
Statistics
Matches: 199, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
57 1 0.01
58 103 0.52
59 90 0.45
60 5 0.03
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (59 bp):
CAAAATAGTCCCTAAATCATGAAAAATGACTAAAATGATCCTAAAATGCATGAAATTTT
Found at i:2546079 original size:28 final size:29
Alignment explanation
Indices: 2546042--2546140 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
2546032 AAAGATCCTA
*
2546042 AAATGCATGAAATTTTCAAAATGATCCCT
1 AAATGCATGAAATTTTCAAAATAATCCCT
* ** * *
2546071 AAAT-CATGAAAAATGACTAAAATTAT-GCT
1 AAATGCATG-AAATTTTC-AAAATAATCCCT
*
2546100 AAAATGCATGAAATTTTCAAAATAATCTCT
1 -AAATGCATGAAATTTTCAAAATAATCCCT
2546130 AAAT-CATGAAA
1 AAATGCATGAAA
2546141 AATGATTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
28 11 0.20
29 22 0.40
30 18 0.33
31 4 0.07
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.29
Consensus pattern (29 bp):
AAATGCATGAAATTTTCAAAATAATCCCT
Found at i:2546161 original size:29 final size:29
Alignment explanation
Indices: 2546000--2546161 Score: 83
Period size: 30 Copynumber: 5.5 Consensus size: 29
2545990 GTTGCGACAC
2546000 AAAATAGTCCCTAAATCAT-AAAAAGTGATT
1 AAAATAGT-CCTAAATCATGAAAAA-TGATT
* *
2546030 TAAA-AGATCCTAAAATGCATG--AAAT-TTT
1 AAAATAG-TCCT-AAAT-CATGAAAAATGATT
*
2546058 CAAAAT-GATCCCTAAATCATGAAAAATGACT
1 -AAAATAG-T-CCTAAATCATGAAAAATGATT
* *
2546089 AAAATTA-TGCTAAAATGCATG--AAAT-TTT
1 AAAA-TAGTCCT-AAAT-CATGAAAAATGATT
*
2546117 CAAAATAATCTCTAAATCATGAAAAATGATT
1 -AAAATAGTC-CTAAATCATGAAAAATGATT
2546148 AAAATAGTCCTAAA
1 AAAATAGTCCTAAA
2546162 ATACATCAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 41
0.66 0.07 0.27
Matches are distributed among these distances:
28 13 0.13
29 36 0.36
30 41 0.41
31 11 0.11
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.28
Consensus pattern (29 bp):
AAAATAGTCCTAAATCATGAAAAATGATT
Found at i:2546216 original size:117 final size:118
Alignment explanation
Indices: 2545999--2546231 Score: 321
Period size: 117 Copynumber: 2.0 Consensus size: 118
2545989 CGTTGCGACA
* * * * *
2545999 CAAAATAGTCCCTAAATCATAAAAAGTGATTTAAAAGATCCTAAAATGCATGAAATTTTCAAAAT
1 CAAAATAATCCCTAAATCATAAAAAGTGATTAAAAAGATCCTAAAATACATCAAATTTACAAAAT
*
2546064 GATCCCTAAATCATGAAAAATGACTAAAATTATGCTAAAATGCATGAAATTTT
66 GATCCCTAAATCATGAAAAATGACTAAAATGATGCTAAAATGCATGAAATTTT
* *
2546117 CAAAATAATCTCTAAATCATGAAAAA-TGATTAAAATAG-TCCTAAAATACATCAAA-TTACATA
1 CAAAATAATCCCTAAATCAT-AAAAAGTGATTAAAA-AGATCCTAAAATACATCAAATTTACAAA
**
2546179 AT-AGTTTCTAAATCATGAAAAATGACTAAAATGATGCTAAAATGCATGAAATT
64 ATGA-TCCCTAAATCATGAAAAATGACTAAAATGATGCTAAAATGCATGAAATT
2546232 ACATAATAGT
Statistics
Matches: 102, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
116 1 0.01
117 53 0.52
118 41 0.40
119 7 0.07
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (118 bp):
CAAAATAATCCCTAAATCATAAAAAGTGATTAAAAAGATCCTAAAATACATCAAATTTACAAAAT
GATCCCTAAATCATGAAAAATGACTAAAATGATGCTAAAATGCATGAAATTTT
Found at i:2546306 original size:117 final size:118
Alignment explanation
Indices: 2546038--2546317 Score: 318
Period size: 117 Copynumber: 2.4 Consensus size: 118
2546028 TTTAAAAGAT
* * * *
2546038 CCTAAAATGCATGAAATTTTCA-AAATGATCCCTAAATCATGAAAAATGACTAAAATTATGCTAA
1 CCTAAAATGCATGAAA-TTACATAAATAATCTCTAAATCATGAAAAATGACTAAAATGATGCTAA
* * * *
2546102 AATGCATGAAATTTTCAAAATAATCTCTAAATCATGAAAAATGATTAAAATAGT
65 AATGCATGAAATTTACAAAATAATCTCTAAAACATGAAAAATGACTAAAATAGG
* * * *
2546156 CCTAAAATACATCAAATTACAT-AATAGTTTCTAAATCATGAAAAATGACTAAAATGATGCTAAA
1 CCTAAAATGCATGAAATTACATAAATAATCTCTAAATCATGAAAAATGACTAAAATGATGCTAAA
* * * * *
2546220 ATGCATGAAA-TTACATAATAGTAC-CTAAAACATGGAGAATGCCTAAAAT-GG
66 ATGCATGAAATTTACAAAATAAT-CTCTAAAACATGAAAAATGACTAAAATAGG
*
2546271 CCTTAAAATGCATGAAATTGCATAAATAATCTCTAACATGCATGAAA
1 CC-TAAAATGCATGAAATTACATAAATAATCTCTAA-AT-CATGAAA
2546318 TAATTCATAA
Statistics
Matches: 134, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
115 3 0.02
116 46 0.34
117 62 0.46
118 16 0.12
119 7 0.05
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (118 bp):
CCTAAAATGCATGAAATTACATAAATAATCTCTAAATCATGAAAAATGACTAAAATGATGCTAAA
ATGCATGAAATTTACAAAATAATCTCTAAAACATGAAAAATGACTAAAATAGG
Found at i:2546606 original size:3 final size:3
Alignment explanation
Indices: 2546600--2546631 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2546590 CAACAACAAC
2546600 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2546632 CATGTATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2548627 original size:56 final size:56
Alignment explanation
Indices: 2548524--2548811 Score: 178
Period size: 56 Copynumber: 5.1 Consensus size: 56
2548514 TTTTAGAGAC
* * * * * *
2548524 AATTTTAATCGAAATAAAAACTATTAGC-TACTTTTGAGCTCTT-TCATTTTGGTGTT
1 AATTTTAA-CTAAATGAAACCTATCAGCTTACTTTTGGGCT-TTCTCATTTTGGTGCT
*
2548580 AATTTTAACTAAATGAAACCTATCAGCTTACTTTTGGGCTTTCTCATTCTT-GT-TT
1 AATTTTAACTAAATGAAACCTATCAGCTTACTTTTGGGCTTTCTCATT-TTGGTGCT
* * ** * * *
2548635 TATTTCAACTAAGACAAAACCTATCA-ATTACTTTTGGGCTTTCTCTTTTCTTGTGCT
1 AATTTTAACTAA-ATGAAACCTATCAGCTTACTTTTGGGCTTTCTCATTT-TGGTGCT
* ** * * ** * * * *
2548692 AATTTTAATTGGGATGAAATCTATTAGC-TACTCATAGGCTTTCACATTTTGATGCC
1 AATTTTAACT-AAATGAAACCTATCAGCTTACTTTTGGGCTTTCTCATTTTGGTGCT
* * ** *
2548748 AATTTTAA-TAAGGATGAAACCTATCA-ATTACTCTTGGGCTTTCTCATTTAAGTGCC
1 AATTTTAACTAA--ATGAAACCTATCAGCTTACTTTTGGGCTTTCTCATTTTGGTGCT
2548804 AATTTTAA
1 AATTTTAA
2548812 TTGCAATAAA
Statistics
Matches: 179, Mismatches: 41, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
54 1 0.01
55 51 0.28
56 92 0.51
57 35 0.20
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (56 bp):
AATTTTAACTAAATGAAACCTATCAGCTTACTTTTGGGCTTTCTCATTTTGGTGCT
Found at i:2548732 original size:112 final size:109
Alignment explanation
Indices: 2548636--2549014 Score: 327
Period size: 112 Copynumber: 3.4 Consensus size: 109
2548626 TTCTTGTTTT
* **
2548636 ATTTCAACTAAGACAAAACCTATCAATTACTTTTGGGCTTTCTCTTTTCTTGTGCTAATTTTAAT
1 ATTTCAACTAAGACAAAACCTATCAACTACTTTTGGGCTTTCTCTTTT-AAGTGC-AATTTTAAT
*
2548701 TGGGATGAAATCTATTAGCTACTCATAGGCTTTCACATTTTGATGCCA
64 TGGGATGAAA-CTATTAGCTACTCATAGGCTTTCTCATTTTG-TGCCA
* ** * * *
2548749 ATTTTAA-TAAGGATGAAACCTATCAATTACTCTTGGGCTTTCTCATTTAAGTGCCAATTTTAAT
1 ATTTCAACTAA-GACAAAACCTATCAACTACTTTTGGGCTTTCTCTTTTAAGTG-CAATTTTAAT
** * * * * * * *
2548813 TGCAATAAAACCTACTAGCTACCCATAGACTTTTTCATTTCGGTGCAA
64 TGGGATGAAA-CTATTAGCTACTCATAGGCTTTCTCATTT-TGTGCCA
* * * * *
2548861 ATTTCAAC-AAGTCAAAAACCTATCAGCTA-TTCTTAGGCTTACTCATTTTAAAGT-CAATTTCA
1 ATTTCAACTAAGAC-AAAACCTATCAACTACTT-TTGGGCTTTCTC-TTTT-AAGTGCAATTTTA
* * *
2548923 ATT-GGATGAAACATATTAGCTACTCTTAAGCTTTCTCATTTTGGTTCCA
62 ATTGGGATGAAAC-TATTAGCTACTCATAGGCTTTCTCATTTT-GTGCCA
* * *
2548972 ATTTCAACTAGGACAAAACATATCAACAACTTTTGGGCTTTCT
1 ATTTCAACTAAGACAAAACCTATCAACTACTTTTGGGCTTTCT
2549015 TATTTAAAGT
Statistics
Matches: 206, Mismatches: 48, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
110 1 0.00
111 62 0.30
112 95 0.46
113 44 0.21
114 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (109 bp):
ATTTCAACTAAGACAAAACCTATCAACTACTTTTGGGCTTTCTCTTTTAAGTGCAATTTTAATTG
GGATGAAACTATTAGCTACTCATAGGCTTTCTCATTTTGTGCCA
Found at i:2551103 original size:26 final size:25
Alignment explanation
Indices: 2551070--2551118 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
2551060 CATAATAATT
*
2551070 AAAACAT-AAGGAGTTAAGTGTAAAA
1 AAAACATAAAGG-GCTAAGTGTAAAA
2551095 AAAAGCATAAAGGGCTAAGTGTAA
1 AAAA-CATAAAGGGCTAAGTGTAA
2551119 CACGGGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.19
26 13 0.62
27 4 0.19
ACGTcount: A:0.53, C:0.06, G:0.22, T:0.18
Consensus pattern (25 bp):
AAAACATAAAGGGCTAAGTGTAAAA
Found at i:2558867 original size:124 final size:124
Alignment explanation
Indices: 2558644--2558910 Score: 430
Period size: 124 Copynumber: 2.2 Consensus size: 124
2558634 TTTAGCCCTC
* * *
2558644 CTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTTAAAGCCCACCTAAGTTGGTGGCACCTTCTA
1 CTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTTAAAGCCCACCTAAGTTGGTGGCACCTTCCA
* *
2558709 GTCCTCAAAGAGCAGGGCGCCTTTTCCTTCTAAAGCCCACACAAGTTGGTGGCACTTTT
66 GTCCTCAAAGAGCAGGACGCCTTTTCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTT
*
2558768 CTAGTCCTCAAAGAGCTGGACGCCTTTTTCCTTTTAAAGCCCACAC-AAGTTGGTGGCACCTTCC
1 CTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTTAAAGCCCAC-CTAAGTTGGTGGCACCTTCC
* *
2558832 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
65 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTT
*
2558892 C-AGTCCTCAAAGAGTAGGA
1 CTAGTCCTCAAAGAGCAGGA
2558911 TGCTCTCTTC
Statistics
Matches: 132, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
123 16 0.12
124 115 0.87
125 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (124 bp):
CTAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTTAAAGCCCACCTAAGTTGGTGGCACCTTCCA
GTCCTCAAAGAGCAGGACGCCTTTTCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:2558913 original size:61 final size:62
Alignment explanation
Indices: 2558644--2558910 Score: 398
Period size: 61 Copynumber: 4.3 Consensus size: 62
2558634 TTTAGCCCTC
* *
2558644 CTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTTAAAGCCCAC-CTAAGTTGGTGGCACC-TT
1 CTAGTCCTCAAAGAGCAGGACG-CCTTTTCCTTTTAAAGCCCACAC-AAGTTGGTGGCACCTTT
* * *
2558706 CTAGTCCTCAAAGAGCAGGGCGCCTTTTCCTTCTAAAGCCCACACAAGTTGGTGGCACTTTT
1 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
*
2558768 CTAGTCCTCAAAGAGCTGGACGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TT
1 CTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
2558830 CCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
*
2558892 C-AGTCCTCAAAGAGTAGGA
1 CTAGTCCTCAAAGAGCAGGA
2558911 TGCTCTCTTC
Statistics
Matches: 188, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
61 83 0.44
62 72 0.38
63 33 0.18
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (62 bp):
CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:2558991 original size:55 final size:56
Alignment explanation
Indices: 2558924--2559348 Score: 483
Period size: 55 Copynumber: 7.5 Consensus size: 56
2558914 TCTCTTCTTT
* *
2558924 CACCCTT-TAGTCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
2558979 CACCCTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
** * *
2559034 CA-TTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCCTTCCAGTCCTCAAAGAGCAGGA------CGCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
2559095 CA-CCTTTCAGTCCTCAAAGAGCATGACGCCTTTCAAAGCCCACATAAGTTGGTGG
1 CACCCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
** ** * *
2559150 CA-TTTTTTAGTCCTCAAAGAGTATGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
**
2559205 CA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGT-G
1 CACCCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* *
2559259 -ACACTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCCTT-CCAGTCCTCAAAGAGCAGGACGCC-T-TTC----AAAGCCCACACAAGTTGGTGG
*
2559321 CA--CTTCCAGTCCTCAAAGGGCAGGACGC
1 CACCCTTCCAGTCCTCAAAGAGCAGGACGC
2559349 TATCTCTTTT
Statistics
Matches: 326, Mismatches: 27, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
53 1 0.00
54 5 0.02
55 222 0.68
56 1 0.00
57 3 0.01
60 21 0.06
61 71 0.22
62 1 0.00
63 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (56 bp):
CACCCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:2559184 original size:226 final size:225
Alignment explanation
Indices: 2558929--2559348 Score: 698
Period size: 226 Copynumber: 1.9 Consensus size: 225
2558919 TCTTTCACCC
2558929 TTTAGTCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTT-CAGTCCT
1 TTTAGTCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCCAGTCCT
* * *
2558993 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
65 CAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGACACTTCCCAGTCCTCAAAGAGCAG
* * *
2559058 GATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCATGACG
130 GATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACG
2559123 CCTTTCAAAGCCCACATAAGTTGGTGGCATTT
194 CCTTTCAAAGCCCACATAAGTTGGTGGCATTT
* * * **
2559155 TTTAGTCCTCAAAGAGTATGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
2559220 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGACACTTCCCAGTCCTCAAAGAGCAGG
66 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGACACTTCCCAGTCCTCAAAGAGCAGG
* *
2559285 ATGCCTTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGGGCAGGACGC
131 ATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGC
2559349 TATCTCTTTT
Statistics
Matches: 180, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
225 25 0.14
226 155 0.86
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (225 bp):
TTTAGTCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGACACTTCCCAGTCCTCAAAGAGCAGG
ATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCC
TTTCAAAGCCCACATAAGTTGGTGGCATTT
Found at i:2559217 original size:171 final size:165
Alignment explanation
Indices: 2558927--2559348 Score: 555
Period size: 171 Copynumber: 2.5 Consensus size: 165
2558917 CTTCTTTCAC
2558927 CCTTT-AGTCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTC
2558991 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * *
2559056 AGGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
131 AGGA------CGCCTTTCAAAGCCCACACAAGTTGGTGACA
* * * *** *
2559097 CCTTTCAGTCCTCAAAGAGCATGACGCCTTTCAAAGCCCACATAAGTTGGTGGCATTTTTTAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTC
* *
2559162 CTCAAAGAGTATGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
2559227 AGGACGCCTTTCAAAGCCCACACAAGTTGGTGACA
131 AGGACGCCTTTCAAAGCCCACACAAGTTGGTGACA
* *
2559262 -CTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTTCTTTTAAAGCCCACACAAGTTGGTGGCA--C
1 CCTT-TCAGTCCTCAAAGAGCAGGAAGCC-T-TTC----AAAGCCCACACAAGTTGGTGGCACCC
*
2559324 TTCCAGTCCTCAAAGGGCAGGACGC
59 TT-CAGTCCTCAAAGAGCAGGACGC
2559349 TATCTCTTTT
Statistics
Matches: 222, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
164 3 0.01
165 49 0.22
166 1 0.00
167 3 0.01
169 2 0.01
170 23 0.10
171 141 0.64
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (165 bp):
CCTTTCAGTCCTCAAAGAGCAGGAAGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTC
CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
AGGACGCCTTTCAAAGCCCACACAAGTTGGTGACA
Found at i:2559476 original size:60 final size:60
Alignment explanation
Indices: 2559399--2559513 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
2559389 TTCTCTTTGC
2559399 AAAGCCCACACAAGTTGGTGGCACCTTGCAGTCCTCAAAGAGCAAGACACCTTTTTTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTGCAGTCCTCAAAGAGCAAGACACCTTTTTTTTT
* * ** ** *
2559459 AAAGTCCACACGAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACACCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTGCAGTCCTCAAAGAGCAAGACACCTTTT
2559514 CCTTTTCTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (60 bp):
AAAGCCCACACAAGTTGGTGGCACCTTGCAGTCCTCAAAGAGCAAGACACCTTTTTTTTT
Found at i:2559631 original size:42 final size:42
Alignment explanation
Indices: 2559510--2559680 Score: 168
Period size: 42 Copynumber: 4.0 Consensus size: 42
2559500 GCAGGACACC
* *
2559510 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGTAGGACACACTTCA
1 TTTTCCTTTT-TCTTTTGTCCTCAAAGAGTAGGACACACTTTA
* *
2559553 -TTCCCTTTTTTTCCCTTTTGTCCTCAAAGAGTAGGACGCACTTTA
1 TTTTCC--TTTTT--CTTTTGTCCTCAAAGAGTAGGACACACTTTA
* * *
2559598 TTTTCCTTTTTCTTTTATCCTCAAAGAGCAGGACACA-TTTCG
1 TTTTCCTTTTTCTTTTGTCCTCAAAGAGTAGGACACACTTT-A
* *
2559640 TTTTCCTTTTTTCCTTTGTCCTCGAAA-AGTAGGACATACTT
1 TTTTCC-TTTTTCTTTTGTCCTC-AAAGAGTAGGACACACTT
2559681 GTAGACACTT
Statistics
Matches: 106, Mismatches: 13, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
41 3 0.03
42 33 0.31
43 24 0.23
44 14 0.13
45 28 0.26
46 4 0.04
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (42 bp):
TTTTCCTTTTTCTTTTGTCCTCAAAGAGTAGGACACACTTTA
Found at i:2559632 original size:87 final size:86
Alignment explanation
Indices: 2559510--2559674 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 86
2559500 GCAGGACACC
* *
2559510 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGTAGGACACACTTC-ATTCCCTTTTTTTCCCTTTTGT
1 TTTTCCTTTTCTCCTTTATCCTCAAAGAGCAGGACACACTTCGATTCCC-TTTTTT-CC-TTTGT
2559574 CCTC-AAAGAGTAGGACGCACTTTA
63 CCTCGAAA-AGTAGGACGCACTTTA
* * * *
2559598 TTTTCCTTTT-TCTTTTATCCTCAAAGAGCAGGACACATTTCGTTTTCCTTTTTTCCTTTGTCCT
1 TTTTCCTTTTCTCCTTTATCCTCAAAGAGCAGGACACACTTCGATTCCCTTTTTTCCTTTGTCCT
2559662 CGAAAAGTAGGAC
66 CGAAAAGTAGGAC
2559675 ATACTTGTAG
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 17 0.25
86 5 0.07
87 33 0.48
88 14 0.20
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.42
Consensus pattern (86 bp):
TTTTCCTTTTCTCCTTTATCCTCAAAGAGCAGGACACACTTCGATTCCCTTTTTTCCTTTGTCCT
CGAAAAGTAGGACGCACTTTA
Found at i:2560376 original size:30 final size:31
Alignment explanation
Indices: 2560340--2560421 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
2560330 ATACCTTTTT
2560340 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
2560370 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
2560401 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
2560422 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:2560444 original size:33 final size:33
Alignment explanation
Indices: 2560370--2560857 Score: 498
Period size: 33 Copynumber: 14.9 Consensus size: 33
2560360 ATTTTGTCTC
* * * *
2560370 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
*
2560401 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCA-CTTTTTCCTTTT
*
2560435 -AAGTCCACAACTCCGTGGCAC-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
* * *
2560462 AAAGCCCACAATTCTGTGGCACTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCT-TTT
*
2560496 -AAGTCCACAACTCCGTGGCAC-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
* * *
2560523 AAAGCCCACAATTCTGTGGCACTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCT-TTT
* *
2560557 -AAGTCCACAACTCCGTGGCAC-----CCGTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
*
2560584 -AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCA-CTTTTTCCTTTT
*
2560617 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
2560650 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTT-CCTTTT
*
2560686 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
2560720 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTT-CCTTTT
2560756 CAAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
2560790 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTT-CCTTTT
*
2560826 -AAGTCCACAACTCCGTGGCATCTTTTTTCCTT
1 AAAGCCCACAACTCCGTGGCA-C-TTTTTCCTT
2560858 CCCAAAGCCC
Statistics
Matches: 389, Mismatches: 32, Indels: 69
0.79 0.07 0.14
Matches are distributed among these distances:
27 31 0.08
28 40 0.10
31 18 0.05
32 1 0.00
33 141 0.36
34 46 0.12
35 54 0.14
36 16 0.04
37 42 0.11
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
Found at i:2560463 original size:61 final size:62
Alignment explanation
Indices: 2560398--2560845 Score: 503
Period size: 61 Copynumber: 6.9 Consensus size: 62
2560388 GCATTTTTTC
*
2560398 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC-CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCCT
* * *
2560459 TTTAAAGCCCACAATTCTGTGGCA-CTTTTTCATCTTTAAGTCCACAACTCCGTGGCAC-CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAGTCCACAACTCCGTGGCACTCCT
* * * *
2560520 TTTAAAGCCCACAATTCTGTGGCA-CTTTTTCATCTTTAAGTCCACAACTCCGTGGCAC-CCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAGTCCACAACTCCGTGGCACTCCT
* * *
2560581 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCAC----TC
2560645 CT
61 CT
*
2560647 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT--AAGTCCACAACTCCGTGGCAC---
*
2560712 TTTCT
59 -TCCT
*
2560717 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT--AAGTCCACAACTCCGTGGCAC---
2560782 TTCCT
59 -TCCT
2560787 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTTAAGTCCACAACTCCGTGGCA
2560846 TCTTTTTTCC
Statistics
Matches: 361, Mismatches: 14, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
60 28 0.08
61 140 0.39
66 4 0.01
67 21 0.06
68 25 0.07
69 5 0.01
70 138 0.38
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.32
Consensus pattern (62 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCCT
Found at i:2560592 original size:27 final size:26
Alignment explanation
Indices: 2560553--2560605 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
2560543 ACTTTTTCAT
*
2560553 CTTTAAGTCCACAACTCCGTGGCACC
1 CTTTAAGCCCACAACTCCGTGGCACC
2560579 CGTTTAAGCCCACAACTCCGTGGCACC
1 C-TTTAAGCCCACAACTCCGTGGCACC
2560606 TTTTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.21
Consensus pattern (26 bp):
CTTTAAGCCCACAACTCCGTGGCACC
Found at i:2560702 original size:70 final size:66
Alignment explanation
Indices: 2560371--2560857 Score: 546
Period size: 70 Copynumber: 7.5 Consensus size: 66
2560361 TTTTGTCTCA
* * * *
2560371 AAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
2560434 T
66 T
* * *
2560435 AAGTCCACAACTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCTGTGGCA-CTTTTTCATCT
1 AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-T
2560494 TT
65 TT
* * *
2560496 AAGTCCACAACTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCTGTGGCA-CTTTTTCATCT
1 AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-T
2560555 TT
65 TT
* *
2560557 AAGTCCACAACTCCGTGGCAC-----CCGTTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
2560616 T
66 T
* *
2560617 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 -AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CC
2560682 TTTT
63 TTTT
* *
2560686 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 --AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-C
2560751 CTTTT
62 CTTTT
*
2560756 CAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 --AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-C
2560821 CTTTT
62 CTTTT
2560826 AAGTCCACAACTCCGTGGCATCTTTTTTCCTT
1 AAGTCCACAACTCCGTGGCA-C-TTTTTCCTT
2560858 CCCAAAGCCC
Statistics
Matches: 390, Mismatches: 17, Indels: 26
0.90 0.04 0.06
Matches are distributed among these distances:
60 29 0.07
61 140 0.36
64 18 0.05
66 4 0.01
67 21 0.05
68 25 0.06
69 6 0.02
70 147 0.38
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (66 bp):
AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
T
Found at i:2561037 original size:49 final size:49
Alignment explanation
Indices: 2560924--2562137 Score: 1698
Period size: 49 Copynumber: 24.7 Consensus size: 49
2560914 GCAACCCCTC
* *
2560924 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2560972 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2561021 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2561072 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2561121 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2561172 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2561221 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2561270 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2561319 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-CCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2561367 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2561416 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2561467 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2561516 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2561565 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2561614 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-CCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2561662 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2561711 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
2561762 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
2561811 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2561860 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
2561909 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2561958 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2562007 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2562050 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2562102 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
2562138 ACATCCTTTT
Statistics
Matches: 1030, Mismatches: 108, Indels: 52
0.87 0.09 0.04
Matches are distributed among these distances:
43 38 0.04
45 1 0.00
48 139 0.13
49 636 0.62
50 1 0.00
51 164 0.16
52 51 0.05
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:2561106 original size:100 final size:101
Alignment explanation
Indices: 2560924--2562167 Score: 1824
Period size: 100 Copynumber: 12.6 Consensus size: 101
2560914 GCAACCCCTC
* *
2560924 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC---T-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2560985 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2561021 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-TTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2561085 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2561121 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-TTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2561185 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
2561221 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
*
2561283 GCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
2561319 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----CCACCATTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2561380 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2561416 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-TTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2561480 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
2561516 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
*
2561578 GCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
2561614 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----CCACCATTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2561675 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2561711 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-TTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
*
2561775 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* **
2561811 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCAT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
* *
2561873 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* **
2561909 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCAT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
*
2561971 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
2562007 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-------C--CTTTAAGTCCAATATA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
* * *
2562063 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTT
* * * * *
2562102 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC--CATCTTTAAGTCCAA
2562167 T
62 T
2562168 ATCGTTGGCC
Statistics
Matches: 1065, Mismatches: 45, Indels: 63
0.91 0.04 0.05
Matches are distributed among these distances:
92 40 0.04
94 3 0.00
95 41 0.04
97 233 0.22
98 359 0.34
100 364 0.34
101 12 0.01
106 1 0.00
108 12 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (101 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:2561461 original size:295 final size:295
Alignment explanation
Indices: 2560924--2562142 Score: 1999
Period size: 295 Copynumber: 4.1 Consensus size: 295
2560914 GCAACCCCTC
* * * *
2560924 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
2560988 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
*
2561053 ATTGGCACCTTTTCCATC-TTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
131 ATTGGCACC----CCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
2561117 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAAT
192 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAAT
2561182 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
257 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2561221 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* *
2561286 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
2561351 ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
131 ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2561416 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
196 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
2561481 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
261 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2561516 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* *
2561581 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
2561646 ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
131 ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2561711 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
196 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
*
2561776 CTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
261 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
*
2561811 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* * * *
2561876 GGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
** * * *
2561941 ATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCT
131 ATTGGCA-CCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCT
* * * *
2562006 TTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA------CC-T-TTAAGTCCAATATA
195 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTA
* * *
2562063 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
260 GCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTT
* * * * *
2562102 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC
2562143 CTTTTTCATC
Statistics
Matches: 882, Mismatches: 34, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
288 38 0.04
289 1 0.00
290 4 0.00
291 41 0.05
294 4 0.00
295 574 0.65
296 89 0.10
297 36 0.04
298 95 0.11
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (295 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
CTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:2562071 original size:22 final size:22
Alignment explanation
Indices: 2562003--2562071 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
2561993 GGCACCTTCA
*
2562003 CCTTTAAGTCCAATGTAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * * *
2562025 CCTTGAA-T-CAACACA-TTGG
1 CCTTTAAGTCCAATATAGCTGG
2562044 CACCTTTAAGTCCAATATAGCTGG
1 --CCTTTAAGTCCAATATAGCTGG
2562068 CCTT
1 CCTT
2562072 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.21
22 11 0.33
23 5 0.15
24 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:2562183 original size:56 final size:52
Alignment explanation
Indices: 2562047--2562185 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
2562037 ACATTGGCAC
* *
2562047 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
2562099 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
2562155 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
2562186 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:2563051 original size:13 final size:13
Alignment explanation
Indices: 2563033--2563057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2563023 CATAAAATGT
2563033 TGTATCGATACAA
1 TGTATCGATACAA
2563046 TGTATCGATACA
1 TGTATCGATACA
2563058 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2563141 original size:13 final size:13
Alignment explanation
Indices: 2563123--2563147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2563113 ATTACTCACA
2563123 TGTATCGATACAT
1 TGTATCGATACAT
2563136 TGTATCGATACA
1 TGTATCGATACA
2563148 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2563212 original size:52 final size:52
Alignment explanation
Indices: 2563156--2563284 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
2563146 CACTGATCTT
* *
2563156 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2563208 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
2563260 TGTATCGATACATGCA-GATAAATTT
1 TGTATCGATACATGCAGGA-AAATTT
2563285 TCATATTTCG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
51 2 0.03
52 71 0.97
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2570563 original size:12 final size:13
Alignment explanation
Indices: 2570535--2570565 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2570525 CCTACTCTTC
2570535 AAAAAAAAAAACA
1 AAAAAAAAAAACA
*
2570548 AAAAAAAAAAAGA
1 AAAAAAAAAAACA
2570561 AAAAA
1 AAAAA
2570566 CCCCTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:2571536 original size:30 final size:31
Alignment explanation
Indices: 2571500--2571581 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
2571490 ATACCTTTTT
2571500 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
2571530 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
2571561 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
2571582 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:2571604 original size:33 final size:33
Alignment explanation
Indices: 2571530--2572017 Score: 498
Period size: 33 Copynumber: 14.9 Consensus size: 33
2571520 ATTTTGTCTC
* * * *
2571530 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
*
2571561 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCA-CTTTTTCCTTTT
*
2571595 -AAGTCCACAACTCCGTGGCAC-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
* * *
2571622 AAAGCCCACAATTCTGTGGCACTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCT-TTT
*
2571656 -AAGTCCACAACTCCGTGGCAC-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
* * *
2571683 AAAGCCCACAATTCTGTGGCACTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCT-TTT
* *
2571717 -AAGTCCACAACTCCGTGGCAC-----CCGTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
*
2571744 -AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCA-CTTTTTCCTTTT
*
2571777 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
2571810 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTT-CCTTTT
*
2571846 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
2571880 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTT-CCTTTT
2571916 CAAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
2571950 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCA--CTTTTT-CCTTTT
*
2571986 -AAGTCCACAACTCCGTGGCATCTTTTTTCCTT
1 AAAGCCCACAACTCCGTGGCA-C-TTTTTCCTT
2572018 CCCAAAGCCC
Statistics
Matches: 389, Mismatches: 32, Indels: 69
0.79 0.07 0.14
Matches are distributed among these distances:
27 31 0.08
28 40 0.10
31 18 0.05
32 1 0.00
33 141 0.36
34 46 0.12
35 54 0.14
36 16 0.04
37 42 0.11
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACTTTTTCCTTTT
Found at i:2571623 original size:61 final size:62
Alignment explanation
Indices: 2571558--2572005 Score: 503
Period size: 61 Copynumber: 6.9 Consensus size: 62
2571548 GCATTTTTTC
*
2571558 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC-CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCCT
* * *
2571619 TTTAAAGCCCACAATTCTGTGGCA-CTTTTTCATCTTTAAGTCCACAACTCCGTGGCAC-CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAGTCCACAACTCCGTGGCACTCCT
* * * *
2571680 TTTAAAGCCCACAATTCTGTGGCA-CTTTTTCATCTTTAAGTCCACAACTCCGTGGCAC-CCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAGTCCACAACTCCGTGGCACTCCT
* * *
2571741 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCAC----TC
2571805 CT
61 CT
*
2571807 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT--AAGTCCACAACTCCGTGGCAC---
*
2571872 TTTCT
59 -TCCT
*
2571877 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT--AAGTCCACAACTCCGTGGCAC---
2571942 TTCCT
59 -TCCT
2571947 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTTAAGTCCACAACTCCGTGGCA
2572006 TCTTTTTTCC
Statistics
Matches: 361, Mismatches: 14, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
60 28 0.08
61 140 0.39
66 4 0.01
67 21 0.06
68 25 0.07
69 5 0.01
70 138 0.38
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.32
Consensus pattern (62 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCCT
Found at i:2571752 original size:27 final size:26
Alignment explanation
Indices: 2571713--2571765 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
2571703 ACTTTTTCAT
*
2571713 CTTTAAGTCCACAACTCCGTGGCACC
1 CTTTAAGCCCACAACTCCGTGGCACC
2571739 CGTTTAAGCCCACAACTCCGTGGCACC
1 C-TTTAAGCCCACAACTCCGTGGCACC
2571766 TTTTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.21
Consensus pattern (26 bp):
CTTTAAGCCCACAACTCCGTGGCACC
Found at i:2571862 original size:70 final size:66
Alignment explanation
Indices: 2571531--2572017 Score: 546
Period size: 70 Copynumber: 7.5 Consensus size: 66
2571521 TTTTGTCTCA
* * * *
2571531 AAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
2571594 T
66 T
* * *
2571595 AAGTCCACAACTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCTGTGGCA-CTTTTTCATCT
1 AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-T
2571654 TT
65 TT
* * *
2571656 AAGTCCACAACTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCTGTGGCA-CTTTTTCATCT
1 AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-T
2571715 TT
65 TT
* *
2571717 AAGTCCACAACTCCGTGGCAC-----CCGTTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
2571776 T
66 T
* *
2571777 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 -AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CC
2571842 TTTT
63 TTTT
* *
2571846 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 --AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-C
2571911 CTTTT
62 CTTTT
*
2571916 CAAAGCCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 --AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-C
2571981 CTTTT
62 CTTTT
2571986 AAGTCCACAACTCCGTGGCATCTTTTTTCCTT
1 AAGTCCACAACTCCGTGGCA-C-TTTTTCCTT
2572018 CCCAAAGCCC
Statistics
Matches: 390, Mismatches: 17, Indels: 26
0.90 0.04 0.06
Matches are distributed among these distances:
60 29 0.07
61 140 0.36
64 18 0.05
66 4 0.01
67 21 0.05
68 25 0.06
69 6 0.02
70 147 0.38
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (66 bp):
AAGTCCACAACTCCGTGGCACTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
T
Found at i:2572197 original size:49 final size:49
Alignment explanation
Indices: 2572084--2573297 Score: 1698
Period size: 49 Copynumber: 24.7 Consensus size: 49
2572074 GCAACCCCTC
* *
2572084 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2572132 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2572181 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2572232 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2572281 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2572332 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2572381 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2572430 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2572479 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-CCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2572527 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2572576 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2572627 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2572676 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2572725 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2572774 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-CCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2572822 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2572871 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
2572922 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
2572971 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2573020 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
2573069 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2573118 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2573167 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2573210 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2573262 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
2573298 ACATCCTTTT
Statistics
Matches: 1030, Mismatches: 108, Indels: 52
0.87 0.09 0.04
Matches are distributed among these distances:
43 38 0.04
45 1 0.00
48 139 0.13
49 636 0.62
50 1 0.00
51 164 0.16
52 51 0.05
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:2572266 original size:100 final size:101
Alignment explanation
Indices: 2572084--2573327 Score: 1824
Period size: 100 Copynumber: 12.6 Consensus size: 101
2572074 GCAACCCCTC
* *
2572084 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC---T-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2572145 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2572181 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-TTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2572245 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2572281 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-TTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2572345 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
2572381 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
*
2572443 GCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
2572479 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----CCACCATTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2572540 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2572576 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-TTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2572640 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
2572676 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
*
2572738 GCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
2572774 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----CCACCATTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
2572835 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2572871 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-TTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
*
2572935 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* **
2572971 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCAT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
* *
2573033 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* **
2573069 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCAT-CATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
*
2573131 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
2573167 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-------C--CTTTAAGTCCAATATA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
* * *
2573223 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTT
* * * * *
2573262 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC--CATCTTTAAGTCCAA
2573327 T
62 T
2573328 ATCGTTGGCC
Statistics
Matches: 1065, Mismatches: 45, Indels: 63
0.91 0.04 0.05
Matches are distributed among these distances:
92 40 0.04
94 3 0.00
95 41 0.04
97 233 0.22
98 359 0.34
100 364 0.34
101 12 0.01
106 1 0.00
108 12 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (101 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:2572621 original size:295 final size:295
Alignment explanation
Indices: 2572084--2573302 Score: 1999
Period size: 295 Copynumber: 4.1 Consensus size: 295
2572074 GCAACCCCTC
* * * *
2572084 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
2572148 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
*
2572213 ATTGGCACCTTTTCCATC-TTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
131 ATTGGCACC----CCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
2572277 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAAT
192 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAAT
2572342 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
257 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2572381 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* *
2572446 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
2572511 ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
131 ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2572576 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
196 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
2572641 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
261 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2572676 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* *
2572741 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
2572806 ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
131 ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2572871 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
196 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
*
2572936 CTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
261 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
*
2572971 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* * * *
2573036 GGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
** * * *
2573101 ATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCT
131 ATTGGCA-CCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCT
* * * *
2573166 TTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA------CC-T-TTAAGTCCAATATA
195 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTA
* * *
2573223 GCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
260 GCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTT
* * * * *
2573262 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC
2573303 CTTTTTCATC
Statistics
Matches: 882, Mismatches: 34, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
288 38 0.04
289 1 0.00
290 4 0.00
291 41 0.05
294 4 0.00
295 574 0.65
296 89 0.10
297 36 0.04
298 95 0.11
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (295 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
ATTGGCACCCCACCATTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTAAGTCCAATGTAG
CTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:2573231 original size:22 final size:22
Alignment explanation
Indices: 2573163--2573231 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
2573153 GGCACCTTCA
*
2573163 CCTTTAAGTCCAATGTAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * * *
2573185 CCTTGAA-T-CAACACA-TTGG
1 CCTTTAAGTCCAATATAGCTGG
2573204 CACCTTTAAGTCCAATATAGCTGG
1 --CCTTTAAGTCCAATATAGCTGG
2573228 CCTT
1 CCTT
2573232 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.21
22 11 0.33
23 5 0.15
24 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:2573343 original size:56 final size:52
Alignment explanation
Indices: 2573207--2573345 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
2573197 ACATTGGCAC
* *
2573207 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
2573259 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
2573315 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
2573346 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:2574211 original size:13 final size:13
Alignment explanation
Indices: 2574193--2574217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2574183 CATAAAATGT
2574193 TGTATCGATACAA
1 TGTATCGATACAA
2574206 TGTATCGATACA
1 TGTATCGATACA
2574218 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2574301 original size:13 final size:13
Alignment explanation
Indices: 2574283--2574307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2574273 ATTACTCACA
2574283 TGTATCGATACAT
1 TGTATCGATACAT
2574296 TGTATCGATACA
1 TGTATCGATACA
2574308 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2574372 original size:52 final size:52
Alignment explanation
Indices: 2574316--2574444 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
2574306 CACTGATCTT
* *
2574316 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2574368 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
2574420 TGTATCGATACATGCA-GATAAATTT
1 TGTATCGATACATGCAGGA-AAATTT
2574445 TCATATTTCG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
51 2 0.03
52 71 0.97
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2578240 original size:13 final size:13
Alignment explanation
Indices: 2578222--2578246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2578212 CATTGTTCAT
2578222 TGTATCGATACAA
1 TGTATCGATACAA
2578235 TGTATCGATACA
1 TGTATCGATACA
2578247 TTATGGGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2578291 original size:20 final size:20
Alignment explanation
Indices: 2578263--2578317 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2578253 GTTTACCCAG
*
2578263 ATGTATCGATACATTTTGCA
1 ATGTATCGATACATTTTACA
* *
2578283 TTTTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
2578303 ATGTATCGATACATT
1 ATGTATCGATACATT
2578318 CAGGCATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTACA
Found at i:2580797 original size:51 final size:51
Alignment explanation
Indices: 2580731--2580949 Score: 271
Period size: 51 Copynumber: 4.3 Consensus size: 51
2580721 TTATTTTCGT
* * * *
2580731 GGGGATACTCTAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATC
1 GGGGATACTCCAACCCCGACCTTATTTCTAAATCATCGATTTCTCACAATC
* * **
2580782 GGGGATACTCCAACCCCGACTTTATTTCCCAAAT-ATTAATTTCTCACAATC
1 GGGGATACTCCAACCCCGACCTTATTT-CTAAATCATCGATTTCTCACAATC
*
2580833 GGGGATACTTCAACCCCGACCTTATTTCTAAATCATCGATTTCTCACAATC
1 GGGGATACTCCAACCCCGACCTTATTTCTAAATCATCGATTTCTCACAATC
* * * * *
2580884 GGGGATACTTCAACCCTTG-CCTTAGTTCTAAATCATCGATTTTTCATAATC
1 GGGGATACTCCAACCC-CGACCTTATTTCTAAATCATCGATTTCTCACAATC
*
2580935 AGGGATACTCCAACC
1 GGGGATACTCCAACC
2580950 TTGTTATTTT
Statistics
Matches: 146, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 5 0.03
51 136 0.93
52 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGACCTTATTTCTAAATCATCGATTTCTCACAATC
Found at i:2584610 original size:20 final size:20
Alignment explanation
Indices: 2584585--2584624 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2584575 ATGAGATGCT
* *
2584585 GGACATATTAAAAATGCATG
1 GGACATAGTAAAAATACATG
2584605 GGACATAGTAAAAATACATG
1 GGACATAGTAAAAATACATG
2584625 ATCAAAGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (20 bp):
GGACATAGTAAAAATACATG
Found at i:2585597 original size:20 final size:20
Alignment explanation
Indices: 2585571--2585625 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2585561 AAAAAGACAG
*
2585571 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
2585591 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
2585611 AAGGTATCGATACAT
1 AATGTATCGATACAT
2585626 CTGAGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:2587287 original size:22 final size:22
Alignment explanation
Indices: 2587259--2587300 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2587249 GAGTTGTTTG
*
2587259 AGCG-AAAGGAAAAGGAAAAGTT
1 AGCGAAAAAGAAAA-GAAAAGTT
2587281 AGCGAAAAAGAAAAGAAAAG
1 AGCGAAAAAGAAAAGAAAAG
2587301 AAAAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.29, T:0.05
Consensus pattern (22 bp):
AGCGAAAAAGAAAAGAAAAGTT
Found at i:2587796 original size:3 final size:3
Alignment explanation
Indices: 2587788--2587819 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2587778 AAGTAGCTTT
2587788 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2587820 TTACAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2588434 original size:4 final size:4
Alignment explanation
Indices: 2588425--2588450 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2588415 ACTGCTACTT
2588425 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
2588451 GGAAATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2588772 original size:25 final size:25
Alignment explanation
Indices: 2588733--2588781 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2588723 AATTTAATAC
2588733 ATTATTAATATATATAAATTTATTT
1 ATTATTAATATATATAAATTTATTT
* *
2588758 ATTATTTAATA-ATATTATTTTATT
1 ATTA-TTAATATATATAAATTTATT
2588782 AATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTAATATATATAAATTTATTT
Found at i:2589127 original size:16 final size:16
Alignment explanation
Indices: 2589106--2589144 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
2589096 AATTATAGCC
*
2589106 ATTTATAAATATTTAT
1 ATTTATAAATATATAT
2589122 ATTTATAAATATATAT
1 ATTTATAAATATATAT
*
2589138 ATATATA
1 ATTTATA
2589145 TAGCCATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTATAAATATATAT
Found at i:2589969 original size:23 final size:23
Alignment explanation
Indices: 2589936--2589989 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
2589926 CACAAATAAT
* *
2589936 TTTATTT-ATAAATTATTTAAAA
1 TTTATTTAATAAATAATATAAAA
2589958 TTTATTTAATAAATAATATAAAA
1 TTTATTTAATAAATAATATAAAA
2589981 TTTATTTAA
1 TTTATTTAA
2589990 AACTCGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTATTTAATAAATAATATAAAA
Found at i:2590092 original size:21 final size:21
Alignment explanation
Indices: 2590029--2590095 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
2590019 AATATTATTC
*
2590029 TTTATATTTTATT-TTATTTTA
1 TTTATATTTTATTATT-TTATA
* * *
2590050 TTTATAATTTAATTA-ATAATA
1 TTTAT-ATTTTATTATTTTATA
2590071 TTTATATTTTATTATTTTATA
1 TTTATATTTTATTATTTTATA
2590092 TTTA
1 TTTA
2590096 GAATTAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 8 0.22
21 21 0.58
22 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATATTTTATTATTTTATA
Found at i:2596890 original size:32 final size:32
Alignment explanation
Indices: 2596849--2596920 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
2596839 ACAAACAGTA
* *
2596849 AATGTATCGATACATAAGTGTTGTATTGATAT
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
2596881 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
2596913 AATGTATC
1 AATGTATC
2596921 ACTACGAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:2596907 original size:19 final size:19
Alignment explanation
Indices: 2596828--2596913 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
2596818 TTTCAAACAA
*
2596828 TTTGTATCGATACAAACAGT
1 TTTGTATCGATACATA-AGT
**
2596848 AAATGTATCGATACATAAGT
1 -TTTGTATCGATACATAAGT
* *
2596868 GTTGTATTGAT--ATAA--
1 TTTGTATCGATACATAAGT
2596883 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2596900 TTTGTATCGATACA
1 TTTGTATCGATACA
2596914 ATGTATCACT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.15
15 4 0.08
17 4 0.08
19 20 0.38
20 3 0.06
21 13 0.25
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2597054 original size:20 final size:21
Alignment explanation
Indices: 2597021--2597063 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
2597011 TCTGAAAATT
2597021 TTACCCAGATGTATCGATACA
1 TTACCCAGATGTATCGATACA
2597042 TTACCCA-ATGTATCGATACA
1 TTACCCAGATGTATCGATACA
2597062 TT
1 TT
2597064 CAGGCATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
TTACCCAGATGTATCGATACA
Found at i:2599718 original size:79 final size:78
Alignment explanation
Indices: 2599510--2599899 Score: 448
Period size: 79 Copynumber: 5.0 Consensus size: 78
2599500 TCTAACTCCA
* * * * *
2599510 ATTTTATTTTCAAAACATCGACTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTCCAAGGG
1 ATTTTATTTTTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGG
*
2599574 AACACTCCAACCCTG
66 -ATACTCCAACCC-G
2599589 ATTTTATTTTTAAAACATCAATTTTTC---ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGG
1 ATTTTATTTTTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGG
*
2599651 ATACCCCAACCTCG
66 ATACTCCAACC-CG
** * * * *
2599665 GCTTTATTTTTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
1 ATTTTATTTTTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGG
2599730 ATACTCCAACCCCG
66 ATACTCCAA-CCCG
* * * * * *
2599744 GTTTTATTTCTAAAACATCAATTTTTTATAGTCGGGGATACTTCAACCCCGTTATTTTCGAGGGG
1 ATTTTATTTTTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGG
*
2599809 ATGCTCCAATCCCG
66 ATACTCCAA-CCCG
** * * * * *
2599823 ATTTTATTTCCAAATCATCGATTTTTCACAACCGTGGATACTCCAACCCCGTTATTTTC-AAGGG
1 ATTTTATTTTTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAA-GG
2599887 GATACTCCAACCC
65 GATACTCCAACCC
2599900 CGTTATTATC
Statistics
Matches: 269, Mismatches: 35, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
76 56 0.21
77 10 0.04
78 4 0.01
79 197 0.73
80 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
ATTTTATTTTTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGG
ATACTCCAACCCG
Found at i:2599876 original size:158 final size:155
Alignment explanation
Indices: 2599510--2599901 Score: 509
Period size: 158 Copynumber: 2.5 Consensus size: 155
2599500 TCTAACTCCA
* * * *
2599510 ATTTTATTTTCAAAACATCGACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGA
1 ATTTTATTTTCAAATCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGG
* * *
2599575 ACACTCCAACCCTGATTTTATTTTTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTA
66 ATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTA
2599640 TTTTCGAAGGGATACCCCAACCTCG
131 TTTTCGAAGGGATACCCCAACCTCG
** * ** * * *
2599665 GCTTTATTTTTAAAAT-ATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGG
1 ATTTTA-TTTTCAAATCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGG
* * *
2599729 GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATAGTCGGGGATACTTCAACCCC
65 GATACTCCAACCCCGATTTTATTTCTAAAACATCAA-TTTTT-CA-TCGGGGATACTCCAACCCC
* * *
2599794 GTTATTTTCGAGGGGATGCTCCAATCC-CG
127 GTTATTTTCGAAGGGATACCCCAA-CCTCG
* * *
2599823 ATTTTATTTCCAAATCATCGATTTTTCACAACCGTGGATACTCCAACCCCGTTATTTTCAAGGGG
1 ATTTTATTTTCAAATCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGG
2599888 ATACTCCAACCCCG
66 ATACTCCAACCCCG
2599902 TTATTATCTC
Statistics
Matches: 199, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
155 76 0.38
156 12 0.06
157 8 0.04
158 101 0.51
159 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (155 bp):
ATTTTATTTTCAAATCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGG
ATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTA
TTTTCGAAGGGATACCCCAACCTCG
Found at i:2604894 original size:21 final size:20
Alignment explanation
Indices: 2604868--2604915 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2604858 GAATAATGTC
2604868 CGATACATTGCAAGCATGTAT
1 CGATACATT-CAAGCATGTAT
***
2604889 CGATACATTCATTTATGTAT
1 CGATACATTCAAGCATGTAT
2604909 CGATACA
1 CGATACA
2604916 ATTTTTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
CGATACATTCAAGCATGTAT
Found at i:2605794 original size:18 final size:18
Alignment explanation
Indices: 2605771--2605822 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
2605761 TGGTGACGAA
*
2605771 TTTCATGCTCTTGTTGTT
1 TTTCATGCTCTTATTGTT
2605789 TTTCATGCTCTTATTGTT
1 TTTCATGCTCTTATTGTT
2605807 TTTCATGCTCTTATTG
1 TTTCATGCTCTTATTG
2605823 ATGTTGGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.10, C:0.17, G:0.13, T:0.60
Consensus pattern (18 bp):
TTTCATGCTCTTATTGTT
Found at i:2609080 original size:57 final size:57
Alignment explanation
Indices: 2608813--2609356 Score: 344
Period size: 57 Copynumber: 9.7 Consensus size: 57
2608803 ATTCGCGAGT
* ** * ** *
2608813 CTTTAGCGATGGCGAGATAATAATTTTGGATCTTAATAAATGGTTGAGTTCTCAAGC
1 CTTTGGCGATGGCGAGATAATAATTTTAAACCTTAGCAAATGGTCGAGTTCTCAAGC
* * * * * * * * *
2608870 CTTTGGC-ATTAGCAAGAAAATAA--TTAGACTTTAGCAAATAGTTGAGTTTTTAAGC
1 CTTTGGCGA-TGGCGAGATAATAATTTTAAACCTTAGCAAATGGTCGAGTTCTCAAGC
* * * ** ** * * * *
2608925 TTTTAGCAATGGCGAGATAATAATTTTGGATTTTTGCAAATAGTCAAGTTCTCAAGT
1 CTTTGGCGATGGCGAGATAATAATTTTAAACCTTAGCAAATGGTCGAGTTCTCAAGC
* * * * * * *
2608982 TTTTGGTGATGGTGAGATAATAATTTTTAACCTTAACAAATGGTTGAGTTCTCAAGT
1 CTTTGGCGATGGCGAGATAATAATTTTAAACCTTAGCAAATGGTCGAGTTCTCAAGC
* * * *
2609039 CTTTGACGATGGCGAGATAATAATTTCAAACCCTT-GTAAAT-GACTGAGTTCTCAAGC
1 CTTTGGCGATGGCGAGATAATAATTTTAAA-CCTTAGCAAATGGTC-GAGTTCTCAAGC
* * *
2609096 CTTTAGCGATGGCCAG---ATAA---T-AA--TTAGCAAATGGTCGAGTTTTCAAGC
1 CTTTGGCGATGGCGAGATAATAATTTTAAACCTTAGCAAATGGTCGAGTTCTCAAGC
* * * * * *
2609144 TTTTGGCAATGGCTAGATAATAATTTCAAAACC-TAGCAAATAGTCAAGTTCTCAAGC
1 CTTTGGCGATGGCGAGATAATAATTT-TAAACCTTAGCAAATGGTCGAGTTCTCAAGC
* * ** * * * * *
2609201 CTTTGACGATGGCTAGATAATAATTTTGGACCTTAGTAATTGGTTGAGTTTTTAAGC
1 CTTTGGCGATGGCGAGATAATAATTTTAAACCTTAGCAAATGGTCGAGTTCTCAAGC
** * * * * *
2609258 CTTTGGTAATGGCAAGATAATAATTTTAGACTTTAGTAAATGGTCAAGTTCTCAAGC
1 CTTTGGCGATGGCGAGATAATAATTTTAAACCTTAGCAAATGGTCGAGTTCTCAAGC
* * **
2609315 CTTTGGCAATGGCGAGAAAATAATTTTGGACCTTAGCAAATG
1 CTTTGGCGATGGCGAGATAATAATTTTAAACCTTAGCAAATG
2609357 TTTAAGGCAT
Statistics
Matches: 374, Mismatches: 94, Indels: 38
0.74 0.19 0.08
Matches are distributed among these distances:
47 2 0.01
48 28 0.07
49 2 0.01
50 2 0.01
51 4 0.01
54 4 0.01
55 40 0.11
56 8 0.02
57 280 0.75
58 4 0.01
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.34
Consensus pattern (57 bp):
CTTTGGCGATGGCGAGATAATAATTTTAAACCTTAGCAAATGGTCGAGTTCTCAAGC
Found at i:2609165 original size:105 final size:105
Alignment explanation
Indices: 2609018--2609225 Score: 269
Period size: 105 Copynumber: 2.0 Consensus size: 105
2609008 TTAACCTTAA
* * * * *
2609018 CAAATGGTTGAGTTCTCAAGTCTTTGACGATGGCGAGATAATAATTTCAAACCCTTGTAAATGAC
1 CAAATGGTCGAGTTCTCAAGTCTTTGACAATGGCGAGATAATAATTTCAAAACCTAGCAAAT-AC
*
2609083 T-GAGTTCTCAAGCCTTT-AGCGATGGCCAGATAATAATTAG
65 TCAAGTTCTCAAGCCTTTGA-CGATGGCCAGATAATAATTAG
* * * *
2609123 CAAATGGTCGAGTTTTCAAG-CTTTTGGCAATGGCTAGATAATAATTTCAAAACCTAGCAAATAG
1 CAAATGGTCGAGTTCTCAAGTC-TTTGACAATGGCGAGATAATAATTTCAAAACCTAGCAAATAC
*
2609187 TCAAGTTCTCAAGCCTTTGACGATGGCTAGATAATAATT
65 TCAAGTTCTCAAGCCTTTGACGATGGCCAGATAATAATT
2609226 TTGGACCTTA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
104 3 0.03
105 85 0.96
106 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (105 bp):
CAAATGGTCGAGTTCTCAAGTCTTTGACAATGGCGAGATAATAATTTCAAAACCTAGCAAATACT
CAAGTTCTCAAGCCTTTGACGATGGCCAGATAATAATTAG
Found at i:2609299 original size:219 final size:219
Alignment explanation
Indices: 2608900--2609339 Score: 499
Period size: 219 Copynumber: 2.0 Consensus size: 219
2608890 TAATTAGACT
* * *** *** *
2608900 TTAGCAAATAGTTGAGTTTTTAAGCTTTTAGCAATGGCGAGATAATAATTTTGGATTTTTGCAAA
1 TTAGCAAATAGTCGAGTTTTCAAGCTTTTAGCAATGGCGAGATAATAATTTCAAAACCTAGCAAA
** ** *
2608965 TAGTCAAGTTCTCAAGTTTTTGGTGATGGTGAGATAATAATTTTTAACCTTAACAAATGGTTGAG
66 TAGTCAAGTTCTCAAGCCTTTGACGATGGTGAGATAATAATTTTGAACCTTAACAAATGGTTGAG
* * * *
2609030 TTCTCAAGTCTTTGACGATGGCGAGATAATAATTTCAAACCCTTGTAAATGACT-GAGTTCTCAA
131 TTCTCAAGCCTTTGACAATGGCAAGATAATAATTTCAAACCCTTGTAAATG-CTCAAGTTCTCAA
* *
2609094 GCCTTTAGCGATGGCCAGATAATAA
195 GCCTTTAGCAATGGCCAGAAAATAA
* * *
2609119 TTAGCAAATGGTCGAGTTTTCAAGCTTTTGGCAATGGCTAGATAATAATTTCAAAACCTAGCAAA
1 TTAGCAAATAGTCGAGTTTTCAAGCTTTTAGCAATGGCGAGATAATAATTTCAAAACCTAGCAAA
* ** *
2609184 TAGTCAAGTTCTCAAGCCTTTGACGATGGCT-AGATAATAATTTTGGACCTTAGTAATTGGTTGA
66 TAGTCAAGTTCTCAAGCCTTTGACGATGG-TGAGATAATAATTTTGAACCTTAACAAATGGTTGA
* * ** * * * *
2609248 GTTTTTAAGCCTTTGGTAATGGCAAGATAATAATTTTAGA-CTTTAGTAAATGGTCAAGTTCTCA
130 GTTCTCAAGCCTTTGACAATGGCAAGATAATAATTTCAAACCCTT-GTAAATGCTCAAGTTCTCA
* *
2609312 AGCCTTTGGCAATGGCGAGAAAATAA
194 AGCCTTTAGCAATGGCCAGAAAATAA
2609338 TT
1 TT
2609340 TTGGACCTTA
Statistics
Matches: 181, Mismatches: 37, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
218 4 0.02
219 176 0.97
220 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (219 bp):
TTAGCAAATAGTCGAGTTTTCAAGCTTTTAGCAATGGCGAGATAATAATTTCAAAACCTAGCAAA
TAGTCAAGTTCTCAAGCCTTTGACGATGGTGAGATAATAATTTTGAACCTTAACAAATGGTTGAG
TTCTCAAGCCTTTGACAATGGCAAGATAATAATTTCAAACCCTTGTAAATGCTCAAGTTCTCAAG
CCTTTAGCAATGGCCAGAAAATAA
Found at i:2611145 original size:20 final size:20
Alignment explanation
Indices: 2611120--2611259 Score: 85
Period size: 20 Copynumber: 6.9 Consensus size: 20
2611110 GTTACAAGCA
*
2611120 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
2611140 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
2611160 ATGTATCGATACAAACAGTGGTA--
1 ATGTATCGATAC--A-A-T-GTACC
* * * * * **
2611183 AGGTAGCTACTGCCA-GTTTC
1 ATGTATCGA-TACAATGTACC
*
2611203 ATGTATCGATACAATTGT-CT
1 ATGTATCGATACAA-TGTACC
2611223 ATGTATCGATACAATG-ACC
1 ATGTATCGATACAATGTACC
2611242 ATGTATCGATACAATGTA
1 ATGTATCGATACAATGTA
2611260 TCGATACAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
18 2 0.02
19 22 0.24
20 50 0.54
21 4 0.04
22 1 0.01
23 7 0.08
24 3 0.03
25 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:2611247 original size:19 final size:19
Alignment explanation
Indices: 2611202--2611257 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2611192 CTGCCAGTTT
*
2611202 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAC
*
2611222 TATGTATCGATACAATGAC
1 CATGTATCGATACAATGAC
2611241 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2611258 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:2611260 original size:13 final size:13
Alignment explanation
Indices: 2611242--2611268 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2611232 TACAATGACC
2611242 ATGTATCGATACA
1 ATGTATCGATACA
2611255 ATGTATCGATACA
1 ATGTATCGATACA
2611268 A
1 A
2611269 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2615078 original size:16 final size:16
Alignment explanation
Indices: 2615057--2615090 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2615047 TTGGATTTTT
2615057 GATAAGTTTATGGCTC
1 GATAAGTTTATGGCTC
2615073 GATAAGTTTATGGCTC
1 GATAAGTTTATGGCTC
2615089 GA
1 GA
2615091 ATTTCGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (16 bp):
GATAAGTTTATGGCTC
Found at i:2619996 original size:308 final size:308
Alignment explanation
Indices: 2619438--2620056 Score: 1015
Period size: 308 Copynumber: 2.0 Consensus size: 308
2619428 CATTAAAAAA
* *
2619438 AACTTAATTATTAAGTAATCTCCAAGCAGTAAAATTTTATTAATATCCAAATTGATCCTAATTAG
1 AACTTAATTACTAAGTAATCTCCAAGAAGTAAAATTTTATTAATATCCAAATTGATCCTAATTAG
*
2619503 AATTTGAATAAAACATCTAATAATTTAAACATTCTTTATCAGAATCCATTTAGATAAAATCAAAG
66 AATTGGAATAAAACATCTAATAATTTAAACATTCTTTATCAGAATCCATTTAGATAAAATCAAAG
* * *
2619568 CGTGACTATTCACACATAAGATGACAAGATGTTACAAGTAAAAAAAATACTCACACTATTAAGAA
131 CATGAATATTCACACATAAAATGACAAGATGTTACAAGTAAAAAAAATACTCACACTATTAAGAA
* * *
2619633 ATGAATGTTTCTACCATAAACATTTTAACGATATATCAAATTGAACTCTTATAGTAAATCATCTT
196 ATGAATGTTTATACCATAAACACTTTAACGATATATCAAATTAAACTCTTATAGTAAATCATCTT
2619698 TGGTGAACTTGTTTATTTGGCAAAAACTTACATGTTATCATGGAGTGT
261 TGGTGAACTTGTTTATTTGGCAAAAACTTACATGTTATCATGGAGTGT
* * *
2619746 AACTTAATTACTAAGTAATCTCCAATAAGTAGAATTTTATTAATATCCAAATTGATCTTAATTAG
1 AACTTAATTACTAAGTAATCTCCAAGAAGTAAAATTTTATTAATATCCAAATTGATCCTAATTAG
* ** *
2619811 AATTGGAATAAAACATCTCATAATTTAAACA-TCTCTTATTGGAATCCATTTAGATGAAATCAAA
66 AATTGGAATAAAACATCTAATAATTTAAACATTCT-TTATCAGAATCCATTTAGATAAAATCAAA
* **
2619875 GCATGAATATTCACACATAAAATGACAAGATGTTACAAGTAAAAAACATACTTGCACTATTAAGA
130 GCATGAATATTCACACATAAAATGACAAGATGTTACAAGTAAAAAAAATACTCACACTATTAAGA
* *
2619940 AATGAATGTTTATACTATAAACACTTTAGCGATATATCAAATTAAACTCTTATAGTAAATCATCT
195 AATGAATGTTTATACCATAAACACTTTAACGATATATCAAATTAAACTCTTATAGTAAATCATCT
* *
2620005 TTGGTGAACTTGTTTATTTGGTAAAAATTTACATGTTATCATGGAGTGT
260 TTGGTGAACTTGTTTATTTGGCAAAAACTTACATGTTATCATGGAGTGT
2620054 AAC
1 AAC
2620057 CATACTTTTG
Statistics
Matches: 287, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
307 3 0.01
308 284 0.99
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (308 bp):
AACTTAATTACTAAGTAATCTCCAAGAAGTAAAATTTTATTAATATCCAAATTGATCCTAATTAG
AATTGGAATAAAACATCTAATAATTTAAACATTCTTTATCAGAATCCATTTAGATAAAATCAAAG
CATGAATATTCACACATAAAATGACAAGATGTTACAAGTAAAAAAAATACTCACACTATTAAGAA
ATGAATGTTTATACCATAAACACTTTAACGATATATCAAATTAAACTCTTATAGTAAATCATCTT
TGGTGAACTTGTTTATTTGGCAAAAACTTACATGTTATCATGGAGTGT
Found at i:2621558 original size:18 final size:20
Alignment explanation
Indices: 2621506--2621548 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
2621496 AAATTATTAT
*
2621506 TAATATAAAAATAATATATAA
1 TAATATAATAA-AATATATAA
2621527 TAATATAATAAAATATA-AA
1 TAATATAATAAAATATATAA
2621546 TAA
1 TAA
2621549 ATATTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 6 0.29
21 10 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATATAATAAAATATATAA
Found at i:2622301 original size:2 final size:2
Alignment explanation
Indices: 2622294--2622327 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2622284 GGTTTGGTAT
2622294 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2622328 ATTGAGGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2638481 original size:2 final size:2
Alignment explanation
Indices: 2638463--2638499 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2638453 TACATGTTCC
* *
2638463 TA TA CA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2638500 GTATGTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2639726 original size:6 final size:6
Alignment explanation
Indices: 2639687--2639723 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
2639677 GGGAAGCTGC
* *
2639687 CATCTT CATCTT CATCTT CATCTT CTTCTT CTTCTT C
1 CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT C
2639724 TTCATCGTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.11, C:0.35, G:0.00, T:0.54
Consensus pattern (6 bp):
CATCTT
Found at i:2639812 original size:6 final size:6
Alignment explanation
Indices: 2639803--2639836 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
2639793 TTCTTCCTCA
*
2639803 GGCTCC GGCTCC GGCTCC AGCTCC GGCTCC GGCT
1 GGCTCC GGCTCC GGCTCC GGCTCC GGCTCC GGCT
2639837 GCAGCTCCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.47, G:0.32, T:0.18
Consensus pattern (6 bp):
GGCTCC
Found at i:2639827 original size:18 final size:18
Alignment explanation
Indices: 2639804--2639844 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
2639794 TCTTCCTCAG
2639804 GCTCCGGCTCCGGCTCCA
1 GCTCCGGCTCCGGCTCCA
*
2639822 GCTCCGGCTCCGGCTGCA
1 GCTCCGGCTCCGGCTCCA
2639840 GCTCC
1 GCTCC
2639845 TGTTCTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.49, G:0.29, T:0.17
Consensus pattern (18 bp):
GCTCCGGCTCCGGCTCCA
Found at i:2640802 original size:13 final size:13
Alignment explanation
Indices: 2640784--2640965 Score: 53
Period size: 13 Copynumber: 13.8 Consensus size: 13
2640774 ATTATAAATA
* *
2640784 ATATAATTATACT
1 ATATAAATATAAT
2640797 ATATAAATATAAT
1 ATATAAATATAAT
2640810 ATA-AAA-ATCAAT
1 ATATAAATAT-AAT
* *
2640822 ATATGATATATCAT
1 ATAT-AAATATAAT
* *
2640836 AAAAATAATATAA-
1 ATATA-AATATAAT
2640849 ATATAAATAT--T
1 ATATAAATATAAT
* *
2640860 TTA-AAATTTATAT
1 ATATAAATATA-AT
2640873 AATATAAATCATTAAT
1 -ATATAAAT-A-TAAT
*
2640889 ATATTAAAT-T-TT
1 ATA-TAAATATAAT
2640901 ATATAAATATAAAAT
1 ATATAAATAT--AAT
* *
2640916 ATTTTAACATGATTAT
1 A-TATAA-AT-ATAAT
*
2640932 -TATATAATAAAAT
1 ATATA-AATATAAT
2640945 ATATAAATA-AA-
1 ATATAAATATAAT
2640956 ATATAAATAT
1 ATATAAATAT
2640966 TAAATTATTA
Statistics
Matches: 124, Mismatches: 21, Indels: 49
0.64 0.11 0.25
Matches are distributed among these distances:
10 5 0.04
11 18 0.15
12 21 0.17
13 27 0.22
14 22 0.18
15 12 0.10
16 13 0.10
17 4 0.03
18 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (13 bp):
ATATAAATATAAT
Found at i:2640811 original size:11 final size:11
Alignment explanation
Indices: 2640781--2640854 Score: 60
Period size: 11 Copynumber: 6.4 Consensus size: 11
2640771 AATATTATAA
*
2640781 ATAATATAATT
1 ATAATATAAAT
2640792 ATACTATATAAAT
1 ATA--ATATAAAT
*
2640805 ATAATATAAAA
1 ATAATATAAAT
*
2640816 ATCAATATATGAT
1 AT-AATATA-AAT
*
2640829 AT-ATCATAAAA
1 ATAAT-ATAAAT
2640840 ATAATATAAAT
1 ATAATATAAAT
2640851 ATAA
1 ATAA
2640855 ATATTTTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
11 26 0.52
12 11 0.22
13 13 0.26
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:2640845 original size:35 final size:35
Alignment explanation
Indices: 2640768--2640854 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
2640758 AAATAAATTT
* *
2640768 AATAATATTATAAATAATATAATTATACTATATAAA
1 AATAATA-TAAAAATAATATAATGATACTATATAAA
*
2640804 TATAATATAAAAATCAATAT-ATGATA-TATCATAAA
1 AATAATATAAAAAT-AATATAATGATACTAT-ATAAA
*
2640839 AATAATATAAATATAA
1 AATAATATAAAAATAA
2640855 ATATTTTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
34 5 0.11
35 28 0.64
36 11 0.25
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (35 bp):
AATAATATAAAAATAATATAATGATACTATATAAA
Found at i:2640876 original size:25 final size:27
Alignment explanation
Indices: 2640843--2640922 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 27
2640833 CATAAAAATA
2640843 ATATAAATATAAATATTTTAAAA-TTT
1 ATATAAATATAAATATTTTAAAATTTT
2640869 ATAT-AATATAAATCATTAATATATTAAATTTT
1 ATATAAATATAAAT-ATT--T-TA--AAATTTT
2640901 ATATAAATATAAAATATTTTAA
1 ATATAAATAT-AAATATTTTAA
2640923 CATGATTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
25 9 0.20
26 7 0.16
28 2 0.04
29 2 0.04
30 2 0.04
31 4 0.09
32 7 0.16
33 8 0.18
34 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (27 bp):
ATATAAATATAAATATTTTAAAATTTT
Found at i:2640878 original size:31 final size:32
Alignment explanation
Indices: 2640840--2640913 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
2640830 TATCATAAAA
*
2640840 ATAATATAAAT-ATAAATATTTTAAAATTTAT
1 ATAATATAAATCATAAATATATTAAAATTTAT
* *
2640871 ATAATATAAATCATTAATATATTAAATTTTAT
1 ATAATATAAATCATAAATATATTAAAATTTAT
2640903 ATAAATATAAA
1 AT-AATATAAA
2640914 ATATTTTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 11 0.29
32 19 0.50
33 8 0.21
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
ATAATATAAATCATAAATATATTAAAATTTAT
Found at i:2642765 original size:16 final size:16
Alignment explanation
Indices: 2642736--2642770 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2642726 ACACAATTAC
2642736 TTTGTAAATAATGTGA
1 TTTGTAAATAATGTGA
2642752 TTTGTGAAAT-ATGTGA
1 TTTGT-AAATAATGTGA
2642768 TTT
1 TTT
2642771 TTACTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTGTAAATAATGTGA
Found at i:2643053 original size:38 final size:37
Alignment explanation
Indices: 2642962--2643056 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 37
2642952 CCACTGGTTT
2642962 AGAATAGTGATTTTTGTTTCGACCTGTACTACCGATA
1 AGAATAGTGATTTTTGTTTCGACCTGTACTACCGATA
*
2642999 AAAATAGT-AGTTTTTG-TTCTGAACCATGT-C-ACCGATTA
1 AGAATAGTGA-TTTTTGTTTC-G-ACC-TGTACTACCGA-TA
*
2643037 AGAATAGTGATCTTTGTTTC
1 AGAATAGTGATTTTTGTTTC
2643057 AAACTGTGCC
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 18 0.38
39 7 0.15
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (37 bp):
AGAATAGTGATTTTTGTTTCGACCTGTACTACCGATA
Found at i:2647182 original size:15 final size:15
Alignment explanation
Indices: 2647162--2647207 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
2647152 TATCTAAAAT
*
2647162 TTGCTTTGTACATAA
1 TTGCTTTGTAAATAA
2647177 TTGCTTTGTAAATAA
1 TTGCTTTGTAAATAA
*
2647192 TGTGATTTGTGAAATA
1 T-TGCTTTGT-AAATA
2647208 TATAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 15 0.56
16 7 0.26
17 5 0.19
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (15 bp):
TTGCTTTGTAAATAA
Done.