Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 136 of 425
Found at i:41000551 original size:12 final size:13
Alignment explanation
Indices: 41000528--41000552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41000518 TTTTTATATT
41000528 TAATTTTAAAAAA
1 TAATTTTAAAAAA
41000541 TAATTTTAAAAA
1 TAATTTTAAAAA
41000553 GTTTCTATTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATTTTAAAAAA
Found at i:41000745 original size:14 final size:14
Alignment explanation
Indices: 41000726--41000755 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
41000716 TATTTTAGTA
41000726 TTGTTTCTGTAAAT
1 TTGTTTCTGTAAAT
41000740 TTGTTTCTGTAAAT
1 TTGTTTCTGTAAAT
41000754 TT
1 TT
41000756 CCCAAGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (14 bp):
TTGTTTCTGTAAAT
Found at i:41006058 original size:18 final size:18
Alignment explanation
Indices: 41006037--41006090 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
41006027 TTTTAATATT
41006037 ATTAAACATACATATTTA
1 ATTAAACATACATATTTA
**
41006055 ATT----ATTTATATTTA
1 ATTAAACATACATATTTA
41006069 ATTAAACATACATATTTA
1 ATTAAACATACATATTTA
41006087 ATTA
1 ATTA
41006091 TTTATATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 12 0.43
18 16 0.57
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAAACATACATATTTA
Found at i:41006065 original size:14 final size:14
Alignment explanation
Indices: 41006048--41006102 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
41006038 TTAAACATAC
41006048 ATATTTAATTATTT
1 ATATTTAATTATTT
**
41006062 ATATTTAATTAAACATAC
1 ATATTTAATT----ATTT
41006080 ATATTTAATTATTT
1 ATATTTAATTATTT
41006094 ATATTTAAT
1 ATATTTAAT
41006103 CATATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 21 0.64
18 12 0.36
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTTAATTATTT
Found at i:41006073 original size:32 final size:32
Alignment explanation
Indices: 41006037--41006102 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
41006027 TTTTAATATT
41006037 ATTAAACATACATATTTAATTATTTATATTTA
1 ATTAAACATACATATTTAATTATTTATATTTA
41006069 ATTAAACATACATATTTAATTATTTATATTTA
1 ATTAAACATACATATTTAATTATTTATATTTA
41006101 AT
1 AT
41006103 CATATAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (32 bp):
ATTAAACATACATATTTAATTATTTATATTTA
Found at i:41006155 original size:16 final size:19
Alignment explanation
Indices: 41006107--41006156 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
41006097 TTTAATCATA
41006107 TAATAAATTATTGATATAAT
1 TAATAAATTATTGATAT-AT
41006127 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTGATATAT
41006145 TAATAAATTATT
1 TAATAAATTATT
41006157 TAATATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.18
17 2 0.07
18 6 0.21
20 6 0.21
21 4 0.14
22 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTGATATAT
Found at i:41006778 original size:14 final size:15
Alignment explanation
Indices: 41006759--41006789 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
41006749 AAAAATAAGT
41006759 AATTTTCTG-GAAAC
1 AATTTTCTGTGAAAC
41006773 AATTTTCTGTGAAAC
1 AATTTTCTGTGAAAC
41006788 AA
1 AA
41006790 ATAGACCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (15 bp):
AATTTTCTGTGAAAC
Found at i:41012379 original size:21 final size:21
Alignment explanation
Indices: 41012353--41012393 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
41012343 CAACGTGGCA
41012353 AGTTAAATGGCCACATCAGCT
1 AGTTAAATGGCCACATCAGCT
* * *
41012374 AGTTAACTTGCCATATCAGC
1 AGTTAAATGGCCACATCAGC
41012394 GGTCCAACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (21 bp):
AGTTAAATGGCCACATCAGCT
Found at i:41013556 original size:20 final size:21
Alignment explanation
Indices: 41013509--41013576 Score: 83
Period size: 20 Copynumber: 3.4 Consensus size: 21
41013499 AACTATAATA
41013509 TTATAAAAAATTATTAAA-AT-
1 TTATAAAAAATTA-TAAATATG
41013529 TTACT-AAAAATTATAAATATG
1 TTA-TAAAAAATTATAAATATG
41013550 TTATAAAAAATT-TAAATATG
1 TTATAAAAAATTATAAATATG
41013570 TTA-AAAA
1 TTATAAAA
41013577 TTTCAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
19 8 0.18
20 25 0.57
21 11 0.25
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (21 bp):
TTATAAAAAATTATAAATATG
Found at i:41013643 original size:23 final size:23
Alignment explanation
Indices: 41013617--41013695 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
41013607 GTGAAATATG
*
41013617 GTGCTAGAATGAATTGCACCGTA
1 GTGCTAGAATGAATTGCACCGAA
* **
41013640 GTGCCAGAATGAATTGCACTAAA
1 GTGCTAGAATGAATTGCACCGAA
* *
41013663 GTGCAAGAATGAATTGCATCGAA
1 GTGCTAGAATGAATTGCACCGAA
*
41013686 GTACTAGAAT
1 GTGCTAGAAT
41013696 ACTCCCGCCA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (23 bp):
GTGCTAGAATGAATTGCACCGAA
Found at i:41018779 original size:93 final size:93
Alignment explanation
Indices: 41018620--41018792 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
41018610 CCGCCATAAG
*
41018620 TGAACTCGGACTCAACTCAATGAGCTCAGGCATTCGCATCCATAAGTAAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTAAACTCGGACTCAACTCA
41018685 ACGAGCTCGAATGCCTAGTTACATCTCT
66 ACGAGCTCGAATGCCTAGTTACATCTCT
* *
41018713 TGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 TGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTAAACTCGGACTCAACTC
* *
41018777 AACGAGTTCGGATGCC
65 AACGAGCTCGAATGCC
41018793 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTAAACTCGGACTCAACTCA
ACGAGCTCGAATGCCTAGTTACATCTCT
Found at i:41018783 original size:46 final size:46
Alignment explanation
Indices: 41018613--41018788 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
41018603 ATGTAACCCG
*
41018613 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGG-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* *
41018659 CCATAAGTAAACTCGGACTCAACTCAACGAGCTC-GA-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
41018705 ACATCTCTTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
41018752 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
41018789 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
46 66 0.61
47 29 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:41023388 original size:40 final size:39
Alignment explanation
Indices: 41023326--41023416 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 39
41023316 GACTCGCTCA
*
41023326 AATGCCTTCGGGACGAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACGAAGCCCGGGTT-TAGCAACTTGCAC
** *
41023365 GAATGCCTTCGGGACTTCA-CCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGAC-GAAGCCCGGGTTTAGCAACTTGCAC
41023405 AATGCCTTCGGG
1 AATGCCTTCGGG
41023417 CTTAGCCCGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
39 12 0.27
40 28 0.62
41 5 0.11
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACGAAGCCCGGGTTTAGCAACTTGCAC
Found at i:41032156 original size:28 final size:28
Alignment explanation
Indices: 41032087--41032184 Score: 117
Period size: 28 Copynumber: 3.4 Consensus size: 28
41032077 GACAAGATTG
* * *
41032087 GCACTAAGTGTGCGAGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
41032117 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41032145 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
41032174 GCACTAAGTGT
1 GCACTAAGTGT
41032185 ACGGATTCAC
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.39
29 16 0.26
30 19 0.31
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41037433 original size:29 final size:29
Alignment explanation
Indices: 41037399--41037530 Score: 167
Period size: 29 Copynumber: 4.6 Consensus size: 29
41037389 TAATCGATCA
* *
41037399 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATATAATTTAAGCT
* *
41037428 CGCACACATAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATATAATTTAAGCT
* **
41037457 CGCACACTTAGTGCCATGTAATTTAAATT
1 CGCACACTTAGTGCCATATAATTTAAGCT
*
41037486 CACACACTTAGTGCCATAT-ATTTCAAGCT
1 CGCACACTTAGTGCCATATAATTT-AAGCT
*
41037515 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41037531 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 4 0.04
29 85 0.96
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAATTTAAGCT
Found at i:41037475 original size:58 final size:59
Alignment explanation
Indices: 41037399--41037530 Score: 189
Period size: 58 Copynumber: 2.3 Consensus size: 59
41037389 TAATCGATCA
* * *
41037399 CGCACACTTAGTGCCATGTGATTTAAGCTCGCACACATAGTGCCATATAATTT-AAG-TT
1 CGCACACTTAGTGCCATGTAATTTAAACTCACACACATAGTGCCATAT-ATTTCAAGCTT
* *
41037457 CGCACACTTAGTGCCATGTAATTTAAATTCACACACTTAGTGCCATATATTTCAAGCTT
1 CGCACACTTAGTGCCATGTAATTTAAACTCACACACATAGTGCCATATATTTCAAGCTT
41037516 -GCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41037531 ATCTTGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
57 4 0.06
58 61 0.91
59 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (59 bp):
CGCACACTTAGTGCCATGTAATTTAAACTCACACACATAGTGCCATATATTTCAAGCTT
Found at i:41039570 original size:29 final size:29
Alignment explanation
Indices: 41039536--41039638 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
41039526 TACTCGATCA
* *
41039536 CGCACACTTAGTGCCATGTGATTT-AAGCC
1 CGCACACTTAGTGCCATAT-ATTTCAAGCT
* * *
41039565 CGCACACATAGTGCCATACAATTTGAA-CT
1 CGCACACTTAGTGCCATA-TATTTCAAGCT
* *
41039594 CGCACACTCAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCAAGCT
*
41039623 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41039639 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 5 0.08
29 53 0.88
30 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCAAGCT
Found at i:41047633 original size:29 final size:28
Alignment explanation
Indices: 41047581--41047656 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
41047571 TACTCGATCA
***
41047581 CGCACACTTAGTGCCATGTGATTT-AAGCC
1 CGCACAC-TAGTGCCATACAATTTGAA-CC
*
41047610 CGCACACATAGTGCCATACAATTTGAACT
1 CGCACAC-TAGTGCCATACAATTTGAACC
41047639 CGCACACTCAGTGCCATA
1 CGCACACT-AGTGCCATA
41047657 TATTTCCAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 1 0.03
29 37 0.93
30 2 0.05
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
CGCACACTAGTGCCATACAATTTGAACC
Found at i:41049801 original size:75 final size:75
Alignment explanation
Indices: 41049718--41049866 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 75
41049708 ATACCCATAT
*
41049718 TTTTATAACTAAAACATTTTCAAACTATTCCTAAACCCTTTCTAACTCTAAAACCTCCCCAGCTT
1 TTTTATAACTAAAACATTTTCAAACTATTCCTAAACCCTTTCTAACTCTAAAACCTCCCCAACTT
41049783 CTTCAAATAA
66 CTTCAAATAA
*
41049793 TTTTATAACTAAAACATTTTTAAACTATTCCTAAACCCTTTCTAACTCTAAAACCTCCCCAACTT
1 TTTTATAACTAAAACATTTTCAAACTATTCCTAAACCCTTTCTAACTCTAAAACCTCCCCAACTT
41049858 CTTCAAATA
66 CTTCAAATA
41049867 CCAAAAAACC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.36, C:0.28, G:0.01, T:0.36
Consensus pattern (75 bp):
TTTTATAACTAAAACATTTTCAAACTATTCCTAAACCCTTTCTAACTCTAAAACCTCCCCAACTT
CTTCAAATAA
Found at i:41055488 original size:25 final size:25
Alignment explanation
Indices: 41055460--41055544 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
41055450 ATGATTTCCT
41055460 TGCCTTAAAGAACTTATCAATGCCA
1 TGCCTTAAAGAACTTATCAATGCCA
* * ** * *
41055485 TGCCTTGGCATGGTCTTA-CATGATTTCCT
1 TGCCTT--AAAGAACTTATCA--A-TGCCA
41055514 TGCCTTAAAGAACTTATCAATGCCA
1 TGCCTTAAAGAACTTATCAATGCCA
41055539 TGCCTT
1 TGCCTT
41055545 GGCATGGTCT
Statistics
Matches: 42, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
25 15 0.36
26 3 0.07
27 12 0.29
28 3 0.07
29 9 0.21
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (25 bp):
TGCCTTAAAGAACTTATCAATGCCA
Found at i:41055503 original size:54 final size:54
Alignment explanation
Indices: 41055307--41055568 Score: 321
Period size: 54 Copynumber: 4.9 Consensus size: 54
41055297 TTTCCTTTTT
* * * * * * *
41055307 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTAAA
* * * ** *
41055361 -AACTCACCAATGCCATACCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTAAA
* * * * *
41055414 GTAACTCATCAATGACATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAAA
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTAAA
*
41055469 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTAAA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTAAA
41055523 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
41055569 ATCTTACCAA
Statistics
Matches: 183, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
52 2 0.01
53 43 0.23
54 94 0.51
55 42 0.23
56 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTAAA
Found at i:41055696 original size:47 final size:45
Alignment explanation
Indices: 41055531--41055755 Score: 130
Period size: 47 Copynumber: 4.8 Consensus size: 45
41055521 AAGAACTTAT
* * ** * *
41055531 CAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-TTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT-GCAATAC
* *** * * *
41055576 CAAATGTCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTAGTGC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGGGATCCTTG-C--AATAC
** ** * *
41055626 CAATGCCACATCTTGATGTGGTCTTACAT-GGAGTCCTTAATCAATGC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGA-TCCTT--GCAATAC
* * **
41055673 CGATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCTTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCAATAC
* *
41055718 CAATGCCATGTCTTGACATGGTCTTACATTGTATCCTT
1 CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
41055756 AACCGTCAAT
Statistics
Matches: 135, Mismatches: 35, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
45 38 0.28
46 8 0.06
47 57 0.42
48 22 0.16
49 7 0.05
50 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (45 bp):
CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCAATAC
Found at i:41055838 original size:43 final size:43
Alignment explanation
Indices: 41055758--41055839 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
41055748 GTATCCTTAA
* *
41055758 CCGTCAATTCCTCCTTAAATGCCATGTTATGAACATGGAATTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATGGAATTT
* * *
41055801 CCGTCAATTCTTCCTTAATTTCCATGGTA-CAACCATGGA
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAA-CATGGA
41055840 CTTTGAGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 2 0.06
43 31 0.94
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (43 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATGGAATTT
Found at i:41059211 original size:22 final size:23
Alignment explanation
Indices: 41059186--41059230 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
41059176 AGGCCTGGGG
41059186 ACACGGACGTGT-CCCTGTTTCC
1 ACACGGACGTGTACCCTGTTTCC
41059208 ACACGGACGTGTGACCCTGTTTC
1 ACACGGACGTGT-ACCCTGTTTC
41059231 ATGAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.16, C:0.33, G:0.24, T:0.27
Consensus pattern (23 bp):
ACACGGACGTGTACCCTGTTTCC
Found at i:41060461 original size:48 final size:47
Alignment explanation
Indices: 41060318--41060498 Score: 190
Period size: 48 Copynumber: 3.9 Consensus size: 47
41060308 ATTTGGTTAT
*
41060318 ATATTGGCACTAAGTGTGTGAGACTGAGATAGCTTCGGCTA-A-AT-
1 ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * * *
41060362 ATATTGGCACTAATTGTGCGAGACT-AGATAACTTTGGTTATATACA
1 ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * *
41060408 TATATTGGCACTTAGTGTGCGTGATTGAGATAGCTTCGGCTATATATA
1 -ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * * *
41060456 CATATTGGCACTTAGTGTGCGAGATTGATATAGATTTGGCTAT
1 -ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTAT
41060499 TTATTTGGTG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 12 0.11
44 24 0.21
45 1 0.01
47 21 0.19
48 55 0.49
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (47 bp):
ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
Found at i:41066891 original size:48 final size:47
Alignment explanation
Indices: 41066748--41066947 Score: 182
Period size: 48 Copynumber: 4.4 Consensus size: 47
41066738 ATTCGATTAT
* *
41066748 ATATTGGCACTAAGTGTGTGAGACTAAGATAGCTTCGGCTA-A-AT-
1 ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * * * *
41066792 ATATTGACACTAATTGTGCGAGACT-AGATAACTTTGGTTATATACA
1 ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * *
41066838 TATATTGGCACTTAGTGTGCGTGATTGAGATAGCTTCGGCTATATATA
1 -ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
* * * *
41066886 CATATTGGCACTTAGTGTGCGAGATTGATATAGCTTTGGCTAT-T-T-
1 -ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
*
41066931 AT-TTGGCGCTAAGTGTG
1 ATATTGGCACTAAGTGTG
41066948 TGAGTTTTCG
Statistics
Matches: 129, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
43 25 0.19
44 25 0.19
45 1 0.01
46 1 0.01
47 21 0.16
48 56 0.43
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (47 bp):
ATATTGGCACTAAGTGTGCGAGACTGAGATAGCTTCGGCTATATATA
Found at i:41087590 original size:30 final size:30
Alignment explanation
Indices: 41087556--41087613 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
41087546 CTTAACAAGT
41087556 AAATGTCTCTAAAATAATAACAAAATTATC
1 AAATGTCTCTAAAATAATAACAAAATTATC
*
41087586 AAATGTCTTTAAAATAATAACAAAATTA
1 AAATGTCTCTAAAATAATAACAAAATTA
41087614 ACAATAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTATC
Found at i:41088063 original size:2 final size:2
Alignment explanation
Indices: 41088056--41088086 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
41088046 TTATACTTGT
41088056 TA TA TA TA 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 T
41088087 TTAAACGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41088228 original size:6 final size:6
Alignment explanation
Indices: 41088212--41088250 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
41088202 ATTTATAAAT
41088212 TTATAAA TTATAA TTATAA TTATAA TTATAA TTATAA TT
1 TTAT-AA TTATAA TTATAA TTATAA TTATAA TTATAA TT
41088251 TTGAAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTATAA
Found at i:41090284 original size:2 final size:2
Alignment explanation
Indices: 41090277--41090303 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
41090267 ATCAAAATTT
41090277 TA TA 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 T
41090304 TTGAATCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41092818 original size:31 final size:31
Alignment explanation
Indices: 41092760--41092818 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
41092750 ACGAAGGCAT
*
41092760 CCTTTACATCTAGTACTCAACATAAAGGTAA
1 CCTTTACATCTAGTACTCAACACAAAGGTAA
**
41092791 CCTTTACATCTAGTACTCGCCACAAAGG
1 CCTTTACATCTAGTACTCAACACAAAGG
41092819 CTTTTCTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (31 bp):
CCTTTACATCTAGTACTCAACACAAAGGTAA
Found at i:41092850 original size:60 final size:61
Alignment explanation
Indices: 41092783--41092996 Score: 189
Period size: 60 Copynumber: 3.7 Consensus size: 61
41092773 TACTCAACAT
* * *
41092783 AAAGGTAACCTTTACATCTAGTACTCGCCACAAAGGCTTTTC-TATCTAGAGTTTTGCCAC
1 AAAGGCAACCTTTACATCTAGTACTCGCCACAAAGGCTTTTCTTGTCCAGAGTTTTGCCAC
* * * *
41092843 AAAGGTAAACTTT--A-C-A--ACTCGCCACAAAGG-TTTTCTTGTCCAGAGCTTTACCAC
1 AAAGGCAACCTTTACATCTAGTACTCGCCACAAAGGCTTTTCTTGTCCAGAGTTTTGCCAC
* * * *
41092897 AAAGACATA-CTTTACATCTAGTATTC-CACACAAAGGC-TTTCTTGTCCAAATTTTTGCCAC
1 AAAGGCA-ACCTTTACATCTAGTACTCGC-CACAAAGGCTTTTCTTGTCCAGAGTTTTGCCAC
* * * * *
41092957 AAAGGCATCATTTACATCCAGTACTCACCACAAATGCTTT
1 AAAGGCAACCTTTACATCTAGTACTCGCCACAAAGGCTTT
41092997 CCCTTAAGAT
Statistics
Matches: 123, Mismatches: 18, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
53 5 0.04
54 37 0.30
55 1 0.01
56 2 0.02
57 2 0.02
58 2 0.02
59 1 0.01
60 70 0.57
61 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (61 bp):
AAAGGCAACCTTTACATCTAGTACTCGCCACAAAGGCTTTTCTTGTCCAGAGTTTTGCCAC
Found at i:41092909 original size:54 final size:54
Alignment explanation
Indices: 41092805--41092912 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
41092795 TACATCTAGT
* * * **
41092805 ACTCGCCACAAAGGCTTTTCTATCTAGAGTTTTGCCACAAAGGTAAACTTTACA
1 ACTCGCCACAAAGGCTTTTCTATCCAGAGCTTTACCACAAAGACAAACTTTACA
* *
41092859 ACTCGCCACAAAGG-TTTTCTTGTCCAGAGCTTTACCACAAAGACATACTTTACA
1 ACTCGCCACAAAGGCTTTTC-TATCCAGAGCTTTACCACAAAGACAAACTTTACA
41092913 TCTAGTATTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
53 5 0.11
54 41 0.89
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (54 bp):
ACTCGCCACAAAGGCTTTTCTATCCAGAGCTTTACCACAAAGACAAACTTTACA
Found at i:41094450 original size:56 final size:56
Alignment explanation
Indices: 41094364--41094498 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
41094354 CCATGGCATT
*
41094364 GATATATGTGAGCGAGTAAGACCACGTTTAATACGTTGGCATCGATAAGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATAAGTGATTCC
* *
41094420 GATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATAAGTGATTCC
*
41094476 -ATCATATGTGTACGAGTAAGACC
1 GAT-ATATGTGTGCGAGTAAGACC
41094499 CTATCTGGGA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
55 2 0.03
56 72 0.97
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATAAGTGATTCC
Found at i:41096016 original size:2 final size:2
Alignment explanation
Indices: 41096011--41096039 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
41096001 TTTATATATA
41096011 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
41096040 TTGTAATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:41096085 original size:73 final size:73
Alignment explanation
Indices: 41095966--41096110 Score: 290
Period size: 73 Copynumber: 2.0 Consensus size: 73
41095956 GTGAGATATA
41095966 TTTGTAATATGTTTGACTTAATGTGTAAATTATGGTTTATATATATGTGTGTGTGTGTGTGTGTG
1 TTTGTAATATGTTTGACTTAATGTGTAAATTATGGTTTATATATATGTGTGTGTGTGTGTGTGTG
41096031 TGTGTGTG
66 TGTGTGTG
41096039 TTTGTAATATGTTTGACTTAATGTGTAAATTATGGTTTATATATATGTGTGTGTGTGTGTGTGTG
1 TTTGTAATATGTTTGACTTAATGTGTAAATTATGGTTTATATATATGTGTGTGTGTGTGTGTGTG
41096104 TGTGTGT
66 TGTGTGT
41096111 ATACTGATTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.19, C:0.01, G:0.28, T:0.51
Consensus pattern (73 bp):
TTTGTAATATGTTTGACTTAATGTGTAAATTATGGTTTATATATATGTGTGTGTGTGTGTGTGTG
TGTGTGTG
Found at i:41096089 original size:2 final size:2
Alignment explanation
Indices: 41096084--41096110 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
41096074 TTTATATATA
41096084 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
41096111 ATACTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:41100786 original size:26 final size:26
Alignment explanation
Indices: 41100754--41100811 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
41100744 TAGAGCTTTG
*
41100754 TATGTTATTTGATGAAATATGAAAGA
1 TATGTTAGTTGATGAAATATGAAAGA
41100780 TATGTTAGTTGATGAAATATGAAAGA
1 TATGTTAGTTGATGAAATATGAAAGA
41100806 TATGTT
1 TATGTT
41100812 TTGGATTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (26 bp):
TATGTTAGTTGATGAAATATGAAAGA
Found at i:41101531 original size:56 final size:56
Alignment explanation
Indices: 41101444--41101579 Score: 211
Period size: 56 Copynumber: 2.4 Consensus size: 56
41101434 ACCATGGCAT
*
41101444 CGATATATGTGTGCGGGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
* * *
41101500 CGATATATGTGTGCAAGTAAGACCGCGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
*
41101556 CG-TGATATGTGTACGAGTAAGACC
1 CGAT-ATATGTGTGCGAGTAAGACC
41101580 TTATCTGGGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
55 1 0.01
56 72 0.99
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
Found at i:41102793 original size:85 final size:85
Alignment explanation
Indices: 41102650--41102821 Score: 344
Period size: 85 Copynumber: 2.0 Consensus size: 85
41102640 ATATTTGGGA
41102650 TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
1 TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
41102715 ATTGGCTTATTATGTTCGGT
66 ATTGGCTTATTATGTTCGGT
41102735 TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
1 TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
41102800 ATTGGCTTATTATGTTCGGT
66 ATTGGCTTATTATGTTCGGT
41102820 TG
1 TG
41102822 CTAAATGGCA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (85 bp):
TGGTGAATGATAGTAAATTTTGGCTTAGTATTGAGATAAAATGATGGATATATATTTGAATCAAT
ATTGGCTTATTATGTTCGGT
Found at i:41108160 original size:96 final size:96
Alignment explanation
Indices: 41107995--41108272 Score: 279
Period size: 96 Copynumber: 2.9 Consensus size: 96
41107985 GGGTGAATTG
* * * * * ** **
41107995 CCGATGCCATATTCCAAACATGGTCTCACACTGGCTCACATGTCA-AGGATGATGCCATGTCCCA
1 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACATA-GCCGATGCCATGTCCCA
* * * **
41108059 GACATGGTCTTACACTAGCTCTCGTCTCAATG
65 AACATGGTCTTACACTAGCTCTCATATCAACA
* * ** *
41108091 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATAATGTAGCCGATGCTATGTCCCAA
1 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCCAA
* *
41108156 ACATGGTCTTACACTAGCGCACATATCAACA
66 ACATGGTCTTACACTAGCTCTCATATCAACA
* * * * * * *
41108187 TCGATGCCATATCCTAGACATGGTTTTACATTGGCTCTCATAACATCGCCGATGCCATGTTCCAA
1 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCCAA
*
41108252 ACATGGTCTTACACTGGCTCT
66 ACATGGTCTTACACTAGCTCT
41108273 TATAATGTGG
Statistics
Matches: 145, Mismatches: 36, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
96 144 0.99
97 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCCAA
ACATGGTCTTACACTAGCTCTCATATCAACA
Found at i:41108256 original size:144 final size:144
Alignment explanation
Indices: 41107994--41108326 Score: 395
Period size: 144 Copynumber: 2.3 Consensus size: 144
41107984 AGGGTGAATT
* * * * * * * *
41107994 GCCGATGCCATATTCCAAACATGGTCTCACACTGGCTCACATGTCAAGGATGATGCCATGTCCCA
1 GCCGATGCTATGTTCCAAACATGGTCTTACACTAGCGCACATATCAAGCATGATGCCATATCCCA
* ** *
41108059 GACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTA
66 GACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTCCCAAACATGGTCTTACACTA
41108124 GCTCTTATAATGTA
131 GCTCTTATAATGTA
* *
41108138 GCCGATGCTATGTCCCAAACATGGTCTTACACTAGCGCACATATCAA-CATCGATGCCATATCCT
1 GCCGATGCTATGTTCCAAACATGGTCTTACACTAGCGCACATATCAAGCAT-GATGCCATATCCC
* * * *
41108202 AGACATGGTTTTACATTGGCTCTCATAAC-ATCGCCGATGCCATGTTCCAAACATGGTCTTACAC
65 AGACATGGTCTTACACTAGCTCTCATAACAAT-GCCGATGCCATGTCCCAAACATGGTCTTACAC
* *
41108266 TGGCTCTTATAATGTG
129 TAGCTCTTATAATGTA
* * * *
41108282 GCTGATGCCT-TGTTTCAAACATGGTTTTACACGAGCGCACA-ATCA
1 GCCGATG-CTATGTTCCAAACATGGTCTTACACTAGCGCACATATCA
41108327 CCCGAATGTC
Statistics
Matches: 161, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
143 8 0.05
144 151 0.94
145 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (144 bp):
GCCGATGCTATGTTCCAAACATGGTCTTACACTAGCGCACATATCAAGCATGATGCCATATCCCA
GACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTCCCAAACATGGTCTTACACTA
GCTCTTATAATGTA
Found at i:41108272 original size:48 final size:48
Alignment explanation
Indices: 41107994--41108313 Score: 221
Period size: 48 Copynumber: 6.7 Consensus size: 48
41107984 AGGGTGAATT
* * * * ** **
41107994 GCCGATGCCATATTCCAAACATGGTCTCACACTGGCTCACATGTCAAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
** * * * **
41108042 GATGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAAT-
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAAC-ATC
* * * ** *
41108090 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATAATGTA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
* * * * * *
41108138 GCCGATGCTATGTCCCAAACATGGTCTTACACTAGCGCACATATCAAC
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
** * * * * *
41108186 ATCGATGCCAT-ATCCTAGACATGGTTTTACATTGGCTCTCATAACATC
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATAACATC
* * ** *
41108234 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTTATAATGTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
* * * *
41108282 GCTGATGCCTTGTTTCAAACATGGTTTTACAC
1 GCCGATGCCATGTTCCAAACATGGTCTTACAC
41108314 GAGCGCACAA
Statistics
Matches: 212, Mismatches: 56, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
47 3 0.01
48 205 0.97
49 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATC
Found at i:41110268 original size:94 final size:93
Alignment explanation
Indices: 41110154--41110327 Score: 312
Period size: 94 Copynumber: 1.9 Consensus size: 93
41110144 CGCCCATAAG
* *
41110154 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
41110219 ACGAGCTTCGGATGCCTAGTTACATCTGT
66 ACGAG-TTCGGATGCCTAGTTACATCTGT
*
41110248 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
41110313 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
41110328 CAAATATCCT
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 10 0.13
94 67 0.87
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTGT
Found at i:41110323 original size:46 final size:46
Alignment explanation
Indices: 41110147--41110323 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
41110137 TGTAACCCGC
* * * *
41110147 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
41110193 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGC-A--T
* **
41110240 ACATCTGTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
41110287 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41110324 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 59 0.53
47 21 0.19
48 23 0.21
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:41110342 original size:46 final size:44
Alignment explanation
Indices: 41110155--41110342 Score: 132
Period size: 46 Copynumber: 4.0 Consensus size: 44
41110145 GCCCATAAGC
* ** ** **
41110155 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATCC-T-AGT
*
41110201 GAACTCGGACTCAACTCAACGAGCTTCGGATGCCTAGT-TACATCT-GT
1 GAACTCGGACTCAACTCAACGAG-TTCGGATGCCCA-TAT-C--CTAGT
* *
41110248 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCATAAGT
1 -GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATATCC-T-AGT
41110295 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCC--ATATCCTAGT
41110341 GA
1 GA
41110343 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
44 5 0.04
45 1 0.01
46 57 0.50
47 17 0.15
48 28 0.25
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATCCTAGT
Found at i:41112742 original size:29 final size:29
Alignment explanation
Indices: 41112703--41112790 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
41112693 CAAAGATAAC
*
41112703 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
41112732 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
41112761 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
41112791 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:41112761 original size:15 final size:15
Alignment explanation
Indices: 41112703--41112781 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
41112693 CAAAGATAAC
*
41112703 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
41112717 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
41112732 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
41112746 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
41112761 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
41112776 AAGAAA
1 AAGAAA
41112782 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:41112790 original size:15 final size:15
Alignment explanation
Indices: 41112714--41112790 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
41112704 AGAAAACCGA
41112714 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
41112729 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
41112743 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
41112757 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
41112773 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
41112788 ATA
1 ATA
41112791 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:41115826 original size:93 final size:93
Alignment explanation
Indices: 41115714--41115885 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41115704 GCCCATAAGT
* *
41115714 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41115779 CGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
*
41115807 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41115872 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
41115886 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:41115881 original size:46 final size:46
Alignment explanation
Indices: 41115706--41115881 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
41115696 TGTAACCCGC
* * *
41115706 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
41115752 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
41115798 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
41115845 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41115882 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.62
47 33 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:41118027 original size:93 final size:93
Alignment explanation
Indices: 41117915--41118086 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41117905 GCCCATAAGT
* *
41117915 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41117980 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
41118008 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41118073 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
41118087 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41118082 original size:46 final size:46
Alignment explanation
Indices: 41117907--41118082 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
41117897 TGTAACCCGC
* * *
41117907 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
41117953 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
41118003 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
41118046 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41118083 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:41122314 original size:38 final size:38
Alignment explanation
Indices: 41122263--41122359 Score: 149
Period size: 38 Copynumber: 2.6 Consensus size: 38
41122253 GATACTCGAG
* * *
41122263 AAATGCTCACACGAGTTGTGATTGTATTATATAACCGT
1 AAATGCTCACACGAGTTGTGACTATATCATATAACCGT
*
41122301 AAATGCTCACACGAGTTGTGACTATATCATGTAACCGT
1 AAATGCTCACACGAGTTGTGACTATATCATATAACCGT
*
41122339 CAATGCTCACACGAGTTGTGA
1 AAATGCTCACACGAGTTGTGA
41122360 AATGAGTTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (38 bp):
AAATGCTCACACGAGTTGTGACTATATCATATAACCGT
Found at i:41126461 original size:40 final size:40
Alignment explanation
Indices: 41126333--41126556 Score: 171
Period size: 40 Copynumber: 5.6 Consensus size: 40
41126323 CCGCACCAAG
* * * * * * *
41126333 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAAAT
* * * * *
41126373 GCCTTCGGGTCTTAGCCCGAATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAAAT
* *
41126413 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAAAT
* * * * * *
41126453 GTCC-TCGGGACTTAGTCCGGATGTAGCCACTAGCACAATT
1 G-CCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAAAT
* * * * ** *
41126493 GCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATTAAC
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAAAT
* *
41126533 GTCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
41126557 CATTCAATTT
Statistics
Matches: 142, Mismatches: 40, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAAAT
Found at i:41126553 original size:80 final size:80
Alignment explanation
Indices: 41126375--41126554 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 80
41126365 GCACAAATGC
* * * * *
41126375 CTTCGGGTCTTAGCCCGAATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATGTAACAACTAGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* *
41126440 TACTAGCATAAATGT
66 TACCAGCATAAACGT
* * * *
41126455 CCTCGGGACTTAGTCCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAA
1 CTTCGGGACTTAGCCCGGATGTAACAACTAGCACGAA-TGCCTTCGGGTCTTAACCCGGATATAA
* *
41126519 TTTCCAGCATTAACGT
65 TTACCAGCATAAACGT
41126535 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAGCCCGGAT
41126555 ATCATTCAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
79 2 0.02
80 82 0.98
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATGTAACAACTAGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
TACCAGCATAAACGT
Found at i:41142000 original size:40 final size:40
Alignment explanation
Indices: 41141958--41142111 Score: 166
Period size: 40 Copynumber: 3.9 Consensus size: 40
41141948 ATCACGATTT
* *
41141958 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* **
41141998 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * * * *
41142038 GCATAAATGTCC-TCGGGACTTAGCCCGGATGTAGCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATATAACAACTA
* * * *
41142078 GCACAATTGCCTTTGGGGCTTAACCCGGATATAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
41142112 TTTCCAGCAT
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:41142026 original size:80 final size:80
Alignment explanation
Indices: 41141936--41142147 Score: 194
Period size: 80 Copynumber: 2.6 Consensus size: 80
41141926 GCCTACAGGA
* * * * * *
41141936 CTTAACCCGGATATCACGATTTGCACAAATG-CCTTCGGGTCTTAGCCCGGATTTAACAACTTGC
1 CTTAACCCGGATATAACGACTAGCACAAATGTCC-TCGGGACTTAGCCCGGATGTAACAACTAGC
*
41142000 ACGAA-TGCCTTCGGGT
65 AC-AATTGCCTTCGGGG
* ** * * *
41142016 CTTAGCCCGGATATAATTACTAGCATAAATGTCCTCGGGACTTAGCCCGGATGTAGCCACTAGCA
1 CTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGATGTAACAACTAGCA
*
41142081 CAATTGCCTTTGGGG
66 CAATTGCCTTCGGGG
*** * ** * *
41142096 CTTAACCCGGATATAATTTCCAGCATTAACGTCTTCGGGACTTAGCCCGGAT
1 CTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGAT
41142148 ATCATTCAAT
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CTTAACCCGGATATAACGACTAGCACAAATGTCCTCGGGACTTAGCCCGGATGTAACAACTAGCA
CAATTGCCTTCGGGG
Found at i:41142145 original size:40 final size:40
Alignment explanation
Indices: 41141962--41142149 Score: 151
Period size: 40 Copynumber: 4.7 Consensus size: 40
41141952 CGATTTGCAC
* * * ** * *
41141962 AAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCAC
1 AAATGTCTTCGGGACTTAGCCCGGATATAATTACTAGCAT
* * *
41142002 GAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCAT
1 AAATGTCTTCGGGACTTAGCCCGGATATAATTACTAGCAT
* * *** *
41142042 AAATGTCCTCGGGACTTAGCCCGGATGTAGCCACTAGCAC
1 AAATGTCTTCGGGACTTAGCCCGGATATAATTACTAGCAT
* * * * * * *
41142082 AATTGCCTTTGGGGCTTAACCCGGATATAATTTCCAGCAT
1 AAATGTCTTCGGGACTTAGCCCGGATATAATTACTAGCAT
* *
41142122 TAACGTCTTCGGGACTTAGCCCGGATAT
1 AAATGTCTTCGGGACTTAGCCCGGATAT
41142150 CATTCAATTT
Statistics
Matches: 113, Mismatches: 35, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 113 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
AAATGTCTTCGGGACTTAGCCCGGATATAATTACTAGCAT
Found at i:41144371 original size:17 final size:17
Alignment explanation
Indices: 41144349--41144383 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
41144339 CCTATTTGCT
41144349 ATGTCTTTATAATTGAG
1 ATGTCTTTATAATTGAG
41144366 ATGTCTTTATAATTGAG
1 ATGTCTTTATAATTGAG
41144383 A
1 A
41144384 GGTCCTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (17 bp):
ATGTCTTTATAATTGAG
Found at i:41144392 original size:17 final size:17
Alignment explanation
Indices: 41144355--41144392 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
41144345 TGCTATGTCT
* *
41144355 TTATAATTGAGATGTCT
1 TTATAATTGAGAGGTCC
41144372 TTATAATTGAGAGGTCC
1 TTATAATTGAGAGGTCC
41144389 TTAT
1 TTAT
41144393 GTTGTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (17 bp):
TTATAATTGAGAGGTCC
Found at i:41145508 original size:43 final size:42
Alignment explanation
Indices: 41145370--41145540 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 42
41145360 ATAGGATCCG
* *
41145370 ATATGTG-TTATCGTGTAAGACCACATCTGGGACGTTGGCATTG
1 ATATGTGATT-TCGTGTAAGACCACGTCTGGGACGTTGGCA-TC
* *
41145413 ACT-TATGATTTACGTGTAAGACCACGTCTGGGATGTTGGCATC
1 A-TATGTGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
41145456 GTGTTTGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATC
1 ATATGTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
* *
41145498 AATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATC
1 -ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
41145541 GTACAAGCTT
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 28 0.26
43 47 0.44
44 31 0.29
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:41147866 original size:42 final size:41
Alignment explanation
Indices: 41147819--41147949 Score: 111
Period size: 42 Copynumber: 3.1 Consensus size: 41
41147809 ACACATAGAA
*
41147819 TCATATCAATGCCATATCACAAATATGGTCTTACATGGGATC
1 TCATATCAATGCCATATC-CAAATATGGTCTTACATGAGATC
* * ** * * *
41147861 TCATATCGATGCCAATAACCCAGCTATGGTTTTACACGA-TTC
1 TCATATCAATGCC-AT-ATCCAAATATGGTCTTACATGAGATC
* * * *
41147903 TCATATCAATGCCATGTCCAAGACATGGTCCTACATGAAATC
1 TCATATCAATGCCATATCCAA-ATATGGTCTTACATGAGATC
41147945 TCATA
1 TCATA
41147950 ACGATTCCGT
Statistics
Matches: 67, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
40 3 0.04
41 13 0.19
42 33 0.49
43 16 0.24
44 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (41 bp):
TCATATCAATGCCATATCCAAATATGGTCTTACATGAGATC
Found at i:41147990 original size:84 final size:84
Alignment explanation
Indices: 41147819--41147991 Score: 188
Period size: 84 Copynumber: 2.1 Consensus size: 84
41147809 ACACATAGAA
* * ** *
41147819 TCATATCAATGCCATATCACAAATATGGTCTTACATGGGATCTCATATCGATGCCAATAACCCAG
1 TCATATCAATGCCATATCACAAACATGGTCCTACATGAAATCTCATAACGATGCCAATAACCCAG
* * * **
41147884 CTATGGTTTTACACGATTC
66 ATATGATCTTACACGAAAC
* * * *
41147903 TCATATCAATGCCATGTC-CAAGACATGGTCCTACATGAAATCTCATAACGATTCC-GTATCCCA
1 TCATATCAATGCCATATCACAA-ACATGGTCCTACATGAAATCTCATAACGATGCCAATAACCCA
41147966 GATATGATCTTACACGTAAAC
65 GATATGATCTTACACG-AAAC
41147987 TCATA
1 TCATA
41147992 ACCCTAGTGT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
83 22 0.30
84 51 0.70
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (84 bp):
TCATATCAATGCCATATCACAAACATGGTCCTACATGAAATCTCATAACGATGCCAATAACCCAG
ATATGATCTTACACGAAAC
Found at i:41172819 original size:40 final size:40
Alignment explanation
Indices: 41172729--41172822 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
41172719 CGACTATGTT
**
41172729 TGGCACTTAGTGTGTGATTCGAGATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGTGATTCGAGATAGCTTCAGCTATATA
**
41172769 TAACACTTAGTGTGTGATTC-AGAATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGTGATTCGAG-ATAGCTTCAGCTATATA
*
41172809 TGGCATTTAGTGTG
1 TGGCACTTAGTGTG
41172823 CAAGACCGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
39 2 0.04
40 44 0.96
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (40 bp):
TGGCACTTAGTGTGTGATTCGAGATAGCTTCAGCTATATA
Found at i:41184700 original size:46 final size:46
Alignment explanation
Indices: 41184640--41184912 Score: 377
Period size: 46 Copynumber: 5.9 Consensus size: 46
41184630 TTTGACATGA
* * * * *
41184640 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
**
41184686 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
**
41184732 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
41184778 TGCTATGGTATCTTTCAACCATGGTCTTACGCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * * *
41184824 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
41184870 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
41184913 GAGAGCACAC
Statistics
Matches: 208, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 204 0.98
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:41189120 original size:29 final size:29
Alignment explanation
Indices: 41189078--41189207 Score: 188
Period size: 29 Copynumber: 4.4 Consensus size: 29
41189068 TGACAAGATC
*
41189078 GGCACTAAGTGTGCGAACTTAAATTATAT
1 GGCACTAAGTGTGCAAACTTAAATTATAT
41189107 GGCACTAAGTGTGCAAACTTAAATTATAT
1 GGCACTAAGTGTGCAAACTTAAATTATAT
41189136 GGCACTAAGTGTGCAAACTTAAAATTATAT
1 GGCACTAAGTGTGCAAACTT-AAATTATAT
* * * ***
41189166 GGCACTATGTGTGCGAGCTTAAATCGCAT
1 GGCACTAAGTGTGCAAACTTAAATTATAT
41189195 GGCACTAAGTGTG
1 GGCACTAAGTGTG
41189208 TGAGATCGTT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
29 66 0.72
30 26 0.28
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (29 bp):
GGCACTAAGTGTGCAAACTTAAATTATAT
Found at i:41189179 original size:59 final size:58
Alignment explanation
Indices: 41189078--41189207 Score: 188
Period size: 59 Copynumber: 2.2 Consensus size: 58
41189068 TGACAAGATC
* * *
41189078 GGCACTAAGTGTGCGAACTTAAATTATATGGCACTAAGTGTGCAAACTTAAATTATAT
1 GGCACTAAGTGTGCAAACTTAAATTATATGGCACTAAGTGTGCAAACTTAAATCACAT
* * * *
41189136 GGCACTAAGTGTGCAAACTTAAAATTATATGGCACTATGTGTGCGAGCTTAAATCGCAT
1 GGCACTAAGTGTGCAAACTT-AAATTATATGGCACTAAGTGTGCAAACTTAAATCACAT
41189195 GGCACTAAGTGTG
1 GGCACTAAGTGTG
41189208 TGAGATCGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 19 0.30
59 45 0.70
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (58 bp):
GGCACTAAGTGTGCAAACTTAAATTATATGGCACTAAGTGTGCAAACTTAAATCACAT
Found at i:41193057 original size:49 final size:48
Alignment explanation
Indices: 41192880--41193151 Score: 397
Period size: 49 Copynumber: 5.7 Consensus size: 48
41192870 CCCTTCGGGA
* * * * *
41192880 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41192927 CCTATCACATA-TATACACTTTCACATTCATCACGTTGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
41192974 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41193021 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
41193070 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41193119 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA-TTATACACTTTCACATTCATC
41193152 GCGTAGAATC
Statistics
Matches: 209, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 97 0.46
49 111 0.53
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41199009 original size:29 final size:29
Alignment explanation
Indices: 41198974--41199167 Score: 298
Period size: 29 Copynumber: 6.7 Consensus size: 29
41198964 ATAAACGATC
*** *
41198974 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
* *
41199003 TCGCACACATAGTGCCACATAATTTTAAGT
1 TCGCACACTTAGTGCCATATAA-TTTAAGT
*
41199033 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
41199062 TCCCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
41199091 TCGCACACTTAGTGCCATATAATTTAATT
1 TCGCACACTTAGTGCCATATAATTTAAGT
41199120 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
41199149 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
41199168 CCTTCCAAGC
Statistics
Matches: 150, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
29 125 0.83
30 25 0.17
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:41199183 original size:58 final size:58
Alignment explanation
Indices: 41198974--41199191 Score: 269
Period size: 58 Copynumber: 3.7 Consensus size: 58
41198964 ATAAACGATC
*** * * *
41198974 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCACATAATTTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGCCCGCACACTTAGTGCCATATAA-TTTAAGT
* *
41199033 TTGCACACTTAGTGCCATATAATTTAAGTTCC-CACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAG-CCCGCACACTTAGTGCCATATAATTTAAGT
***
41199091 TCGCACACTTAGTGCCATATAATTTAATTTCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGCCCGCACACTTAGTGCCATATAATTTAAGT
** *
41199149 TCGCACACTTAGTGCCATA-CCTTCCAAGCCCGCACACTTAGTG
1 TCGCACACTTAGTGCCATATAATT-TAAGCCCGCACACTTAGTG
41199192 TCGATCTTGT
Statistics
Matches: 139, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
57 4 0.03
58 93 0.67
59 41 0.29
60 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATATAATTTAAGCCCGCACACTTAGTGCCATATAATTTAAGT
Found at i:41199183 original size:87 final size:87
Alignment explanation
Indices: 41198974--41199191 Score: 305
Period size: 87 Copynumber: 2.5 Consensus size: 87
41198964 ATAAACGATC
* *
41198974 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCACATAATTTTAAGTTTGCAC
1 TCGCACACTTAGTGCCATAC-ATTTAAGCTCGCACACTTAGTGCCACATAATTTTAAGTTTGCAC
41199039 ACTTAGTGCCATATAATTTAAGT
65 ACTTAGTGCCATATAATTTAAGT
* * * *
41199062 TCCCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAA-TTTAA-TTTCGCA
1 TCGCACACTTAGTGCCATA-CATTTAAGCTCGCACACTTAGTGCCACATAATTTTAAGTTT-GCA
41199125 CACTTAGTGCCATATAATTTAAGT
64 CACTTAGTGCCATATAATTTAAGT
* * *
41199149 TCGCACACTTAGTGCCATACCTTCCAAGCCCGCACACTTAGTG
1 TCGCACACTTAGTGCCATACATT-TAAGCTCGCACACTTAGTG
41199192 TCGATCTTGT
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
86 5 0.04
87 66 0.57
88 44 0.38
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (87 bp):
TCGCACACTTAGTGCCATACATTTAAGCTCGCACACTTAGTGCCACATAATTTTAAGTTTGCACA
CTTAGTGCCATATAATTTAAGT
Found at i:41204433 original size:29 final size:29
Alignment explanation
Indices: 41204409--41204502 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
41204399 TGGCACACCC
* *
41204409 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCACGCACACTT
41204438 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCACGCACACTT
41204467 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCACGCACACTT
41204496 AGTGCCA
1 AGTGCCA
41204503 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCACGCACACTT
Found at i:41204434 original size:58 final size:58
Alignment explanation
Indices: 41204371--41204502 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 58
41204361 GATTTAAGCC
* * * ** *
41204371 CGCACACATAGTGCCATAGCCTTCGAGCTGGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATAGACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
41204429 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAGACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
41204487 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41204503 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (58 bp):
CGCACACTTAGTGCCATAGACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:41208369 original size:10 final size:9
Alignment explanation
Indices: 41208344--41208368 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
41208334 TCCATGCTCA
41208344 TTTTTTTCT
1 TTTTTTTCT
41208353 TTTTTTTCT
1 TTTTTTTCT
41208362 TTTTTTT
1 TTTTTTT
41208369 TTTCATTTCT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:41210334 original size:19 final size:19
Alignment explanation
Indices: 41210310--41210348 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
41210300 CCCTTATTTC
41210310 TCTCTCTGGAAATATTTAA
1 TCTCTCTGGAAATATTTAA
41210329 TCTCTCTGGAAATATTTAA
1 TCTCTCTGGAAATATTTAA
41210348 T
1 T
41210349 TTCTGTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (19 bp):
TCTCTCTGGAAATATTTAA
Found at i:41211915 original size:87 final size:87
Alignment explanation
Indices: 41211737--41211922 Score: 250
Period size: 87 Copynumber: 2.1 Consensus size: 87
41211727 TAAACGATCT
* * *
41211737 GCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTTAAGTTTGCACAC
1 GCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTTAAGTTCGCACAC
**
41211802 TTAGTGCCATATAATTTAAGTT
66 TTAGTGCCATATAATTTAAGCC
* * *
41211824 GCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAA-TTTAAGTTCGCACAC
1 GCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTTAAGTTCGCACAC
**
41211888 TTAGTGCCATA-CCTTTCAAGCCC
66 TTAGTGCCATATAATTT-AAG-CC
41211911 GCACACTTAGTG
1 GCACACTTAGTG
41211923 TCGATCTTGT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
85 3 0.03
86 28 0.32
87 56 0.64
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (87 bp):
GCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTTAAGTTCGCACAC
TTAGTGCCATATAATTTAAGCC
Found at i:41211922 original size:29 final size:29
Alignment explanation
Indices: 41211737--41211898 Score: 254
Period size: 29 Copynumber: 5.6 Consensus size: 29
41211727 TAAACGATCT
*** *
41211737 GCACACTTAGTGCCATGCGATTTAAGCTC
1 GCACACTTAGTGCCATATAATTTAAGTTC
* *
41211766 GCACACATAGTGCCATATAATTTTAAGTTT
1 GCACACTTAGTGCCATATAA-TTTAAGTTC
41211796 GCACACTTAGTGCCATATAATTTAAGTT-
1 GCACACTTAGTGCCATATAATTTAAGTTC
41211824 GCACACTTAGTGCCATATAATTTAAGTTC
1 GCACACTTAGTGCCATATAATTTAAGTTC
41211853 GCACACTTAGTGCCATATAATTTAAGTTC
1 GCACACTTAGTGCCATATAATTTAAGTTC
41211882 GCACACTTAGTGCCATA
1 GCACACTTAGTGCCATA
41211899 CCTTTCAAGC
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
28 28 0.23
29 70 0.56
30 26 0.21
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (29 bp):
GCACACTTAGTGCCATATAATTTAAGTTC
Found at i:41211922 original size:58 final size:58
Alignment explanation
Indices: 41211737--41211898 Score: 254
Period size: 57 Copynumber: 2.8 Consensus size: 58
41211727 TAAACGATCT
*** * * *
41211737 GCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTTAAGTTT
1 GCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAA-TTTAAGTTC
41211796 GCACACTTAGTGCCATATAATTTAAGTT-GCACACTTAGTGCCATATAATTTAAGTTC
1 GCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTC
41211853 GCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATA
1 GCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATA
41211899 CCTTTCAAGC
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
57 36 0.38
58 36 0.38
59 24 0.25
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (58 bp):
GCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTC
Found at i:41219139 original size:29 final size:29
Alignment explanation
Indices: 41219104--41219268 Score: 267
Period size: 29 Copynumber: 5.7 Consensus size: 29
41219094 ATAAACGATC
*** *
41219104 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATATAATTTAAGT
*
41219133 TCGCACACATAGTGCCATATAATTTTAAGT
1 TCGCACACTTAGTGCCATATAA-TTTAAGT
*
41219163 TTGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
41219192 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
41219221 TCGCACACTTAGTGCCATATAATTTAAGT
1 TCGCACACTTAGTGCCATATAATTTAAGT
41219250 TCGCACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
41219269 CCTTCCAAGC
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
29 101 0.80
30 26 0.20
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATAATTTAAGT
Found at i:41219226 original size:88 final size:87
Alignment explanation
Indices: 41219104--41219268 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 87
41219094 ATAAACGATC
* * *
41219104 TCGCACACTTAGTGCCATGCGATTTAAGCTCGCACACATAGTGCCATATAATTTTAAGTTTGCAC
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAA-TTTAAGTTCGCAC
41219169 ACTTAGTGCCATATAATTTAAGT
65 ACTTAGTGCCATATAATTTAAGT
* * *
41219192 TCGCACACTTAGTGCCATATAATTTAAGTTCGCACACTTAGTGCCATATAATTTAAGTTCGCACA
1 TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACA
41219257 CTTAGTGCCATA
66 CTTAGTGCCATA
41219269 CCTTCCAAGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 25 0.35
88 46 0.65
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (87 bp):
TCGCACACTTAGTGCCATACAATTTAAGCTCGCACACATAGTGCCATATAATTTAAGTTCGCACA
CTTAGTGCCATATAATTTAAGT
Found at i:41225237 original size:43 final size:43
Alignment explanation
Indices: 41225120--41225237 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 43
41225110 GAGGATACAT
* *
41225120 TGTGTGTGCCAATATAGATGCTTCAGTTTAT-TCAATGATGCA
1 TGTGTGTGCCAGTATAGATGCTTCGGTTTATCTCAATGATGCA
* * ** * *
41225162 TAGTCTATGTTAGTATAGTTGCTTCGGTTTATCT-GATGATGCA
1 T-GTGTGTGCCAGTATAGATGCTTCGGTTTATCTCAATGATGCA
41225205 CTGTGTGTGCCAGTATAGATGCTTCGGTTTATC
1 -TGTGTGTGCCAGTATAGATGCTTCGGTTTATC
41225238 CTATGTGTGT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.02
43 57 0.95
44 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (43 bp):
TGTGTGTGCCAGTATAGATGCTTCGGTTTATCTCAATGATGCA
Found at i:41226837 original size:48 final size:48
Alignment explanation
Indices: 41226756--41226879 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
41226746 ATACTAGGGT
*
41226756 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGA
* * **
41226804 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGA
* *
41226852 TATGAGAGTTAGTGCAAGACCATGTTTG
1 TATGAGAGCTAGTGTAAGACCATGTTTG
41226880 TAACGCCCCG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGA
Found at i:41228352 original size:46 final size:46
Alignment explanation
Indices: 41228180--41228355 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
41228170 TGTAACCCGC
* *
41228180 CCATAAGTGAACTCAAACTCAACTCAACGAGCTT-GGGCATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TTCGGACATTCGCAT
* *
41228226 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *** * *
41228272 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
41228319 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
41228356 TGCCCAAACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 64 0.61
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:41229812 original size:31 final size:31
Alignment explanation
Indices: 41229774--41229837 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
41229764 CCTTTTCATA
41229774 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** * *
41229805 TTTCATATTTCATATTACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
41229836 TT
1 TT
41229838 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:41230082 original size:24 final size:24
Alignment explanation
Indices: 41230045--41230172 Score: 197
Period size: 24 Copynumber: 5.4 Consensus size: 24
41230035 CTAGAGGCCT
* * *
41230045 AGCCTCTTTTAATAACTAGGGAAAA
1 AGCC-CTTTTAATAACTGGGGCATA
41230070 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
41230094 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
41230117 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
41230141 AGCCC-TTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
41230164 AGCCCTTTT
1 AGCCCTTTT
41230173 TCACTTCTTC
Statistics
Matches: 97, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
23 45 0.46
24 48 0.49
25 4 0.04
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:41230105 original size:47 final size:47
Alignment explanation
Indices: 41230052--41230172 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
41230042 CCTAGCCTCT
* *
41230052 TTTAATAACTAGGGAAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
41230099 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
41230146 TTTAATAACTAGGGCATAAGCCCTTTT
1 TTTAATAACTAGGGCATAAGCCCTTTT
41230173 TCACTTCTTC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (47 bp):
TTTAATAACTAGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:41230106 original size:23 final size:23
Alignment explanation
Indices: 41230052--41230171 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
41230042 CCTAGCCTCT
* * *
41230052 TTTAATAACTAGGGAAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
41230075 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
41230099 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
41230122 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
41230146 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
41230169 TTT
1 TTT
41230172 TTCACTTCTT
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 48 0.53
24 43 0.47
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:41230249 original size:20 final size:20
Alignment explanation
Indices: 41230224--41230288 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
41230214 ATGAATACAG
41230224 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
41230244 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
41230264 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
41230284 CATGT
1 CATGT
41230289 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:41230255 original size:11 final size:11
Alignment explanation
Indices: 41230224--41230277 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
41230214 ATGAATACAG
41230224 CATGTGCATAT
1 CATGTGCATAT
*
41230235 CA--TACATAT
1 CATGTGCATAT
41230244 CATGTGCATAT
1 CATGTGCATAT
* *
41230255 CA--TACATGT
1 CATGTGCATAT
41230264 CATGTGCATAT
1 CATGTGCATAT
41230275 CAT
1 CAT
41230278 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:41232753 original size:48 final size:48
Alignment explanation
Indices: 41232675--41232892 Score: 213
Period size: 48 Copynumber: 4.5 Consensus size: 48
41232665 GGATATTACA
* * * * * *
41232675 ATGTTTGGGACATGGCATTGGCCTCA-ATATGTGAGCCAGTGTAAGACC
1 ATGTCTGGAACATGGCATCGGCAT-ATATATGAGAGCTAGTGTAAGACC
* * *
41232723 ATGTTTGGAACATGGCATCGGTATTTATATGAGAGCTAGTGTAAGACC
1 ATGTCTGGAACATGGCATCGGCATATATATGAGAGCTAGTGTAAGACC
* * ** * * *
41232771 ATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCTAATGTAATACC
1 ATGTCTGGAACATGGCATCGGCATATATATGAGAGCTAGTGTAAGACC
* ** *
41232819 ATGTTTGGAACATGGCATCAACACCGATATATGAGAGCTAGTGTAAGACC
1 ATGTCTGGAACATGGCATCGGCA--TATATATGAGAGCTAGTGTAAGACC
*
41232869 ATGTCTGGGACATGGCATCGGCAT
1 ATGTCTGGAACATGGCATCGGCAT
41232893 CTTACCTTTT
Statistics
Matches: 135, Mismatches: 32, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
48 97 0.72
50 38 0.28
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
ATGTCTGGAACATGGCATCGGCATATATATGAGAGCTAGTGTAAGACC
Found at i:41232888 original size:98 final size:96
Alignment explanation
Indices: 41232675--41232890 Score: 315
Period size: 96 Copynumber: 2.2 Consensus size: 96
41232665 GGATATTACA
* * *
41232675 ATGTTTGGGACATGGCATTGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCA
1 ATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCA
*** **
41232740 TCGGTATTTATATGAGAGCTAGTGTAAGACC
66 TCAACAGATATATGAGAGCTAGTGTAAGACC
* * *
41232771 ATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCTAATGTAATACCATGTTTGGAACATGGCA
1 ATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCA
41232836 TCAACACCGATATATGAGAGCTAGTGTAAGACC
66 TCAACA--GATATATGAGAGCTAGTGTAAGACC
41232869 ATGTCTGGGACATGGCATCGGC
1 ATGTCTGGGACATGGCATCGGC
41232891 ATCTTACCTT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 62 0.58
98 45 0.42
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (96 bp):
ATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCA
TCAACAGATATATGAGAGCTAGTGTAAGACC
Found at i:41236973 original size:16 final size:15
Alignment explanation
Indices: 41236949--41236978 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
41236939 AACTGTTTTA
41236949 TTACAAATTTCACTC
1 TTACAAATTTCACTC
41236964 TTACATAATTTCACT
1 TTACA-AATTTCACT
41236979 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:41237292 original size:50 final size:51
Alignment explanation
Indices: 41237186--41237463 Score: 239
Period size: 50 Copynumber: 5.5 Consensus size: 51
41237176 CTGGTACGCA
* * *
41237186 TAGTAGCCTACACTTAGTACTACACATGCGACC-AACAATCT-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGAGTACACG
* * *
41237235 TAGTAGCCTGCACTTAGTATTAAACACGTGACCTAACCATCTGA-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGAGTACACG
* * * * ** * * *
41237285 TATTAGCCTGCAGTTAGTATTACACACGTGA-TTGAA-GTTGTCGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACAATCT-GAGTACACG
* * *
41237336 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTG-GTACATC-
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGAGTACA-CG
* * * * *
41237386 TAGTAGCCTGCACTTAGTACTACACACATGACCTAAAATCATCTTA-AACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA--ATCTGAGTACACG
*
41237438 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
41237464 TGTGTTCTCA
Statistics
Matches: 184, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
49 31 0.17
50 82 0.45
51 36 0.20
52 35 0.19
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGAGTACACG
Found at i:41237446 original size:52 final size:51
Alignment explanation
Indices: 41237334--41237463 Score: 156
Period size: 52 Copynumber: 2.5 Consensus size: 51
41237324 GTCGAGTACG
** * **
41237334 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACAT
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAAATATCTGAAACAT
* *
41237385 C-TAGTAGCCTGCACTTAGTACTACACACATGACCTAAAATCATCTTAAACA-
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCT-AAAT-ATCTGAAACAT
*
41237436 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
41237464 TGTGTTCTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
50 31 0.46
51 5 0.07
52 32 0.47
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACACGACCTAAATATCTGAAACAT
Found at i:41239645 original size:14 final size:14
Alignment explanation
Indices: 41239628--41239657 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41239618 ATTTTTACCT
*
41239628 TTTAATTTTCTTAG
1 TTTAATTTACTTAG
41239642 TTTAATTTACTTAG
1 TTTAATTTACTTAG
41239656 TT
1 TT
41239658 AAAATCCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTAATTTACTTAG
Found at i:41241574 original size:40 final size:40
Alignment explanation
Indices: 41241529--41241696 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
41241519 CGGAATACAA
*
41241529 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
41241569 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
41241609 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
41241649 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
41241689 CCGGATAT
1 CCGGATAT
41241697 CATGCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:41241669 original size:80 final size:80
Alignment explanation
Indices: 41241529--41241696 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
41241519 CGGAATACAA
* * *
41241529 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
41241594 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
41241609 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
41241672 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
41241689 CCGGATAT
1 CCGGATAT
41241697 CATGCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:41256128 original size:34 final size:35
Alignment explanation
Indices: 41256080--41256169 Score: 146
Period size: 34 Copynumber: 2.6 Consensus size: 35
41256070 GTACATCATC
*
41256080 AATCCAACCATAACACGCCAATGCTCAT-AGAGCT
1 AATCCAACCGTAACACGCCAATGCTCATAAGAGCT
* *
41256114 AATCCAACCGTAACACGCCAATGCTTATAAGAGTT
1 AATCCAACCGTAACACGCCAATGCTCATAAGAGCT
41256149 AATCCAACCGTAACACGCCAA
1 AATCCAACCGTAACACGCCAA
41256170 ATAGAGAGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 26 0.50
35 26 0.50
ACGTcount: A:0.39, C:0.31, G:0.12, T:0.18
Consensus pattern (35 bp):
AATCCAACCGTAACACGCCAATGCTCATAAGAGCT
Found at i:41258771 original size:28 final size:28
Alignment explanation
Indices: 41258702--41258802 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
41258692 GACAAGATTG
* * * *
41258702 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
41258732 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41258760 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
41258789 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
41258803 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41258796 original size:29 final size:28
Alignment explanation
Indices: 41258731--41258802 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
41258721 AAAATTGTAC
*
41258731 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
41258759 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
41258788 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41258803 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:41266564 original size:28 final size:28
Alignment explanation
Indices: 41266495--41266596 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 28
41266485 GACAAGATTG
* * * *
41266495 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
41266525 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41266553 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
41266582 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
41266597 TTCACTATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.37
29 21 0.32
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41266589 original size:29 final size:28
Alignment explanation
Indices: 41266524--41266596 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 28
41266514 AAAATTGTAC
*
41266524 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
41266552 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
41266581 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
41266597 TTCACTATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.45
29 21 0.50
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:41271093 original size:40 final size:40
Alignment explanation
Indices: 41271034--41271241 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
41271024 CAATTGAATG
* * * *
41271034 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
41271074 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
41271114 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
41271154 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
41271194 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
41271234 ATATCCGG
1 ATATCCGG
41271242 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:41271172 original size:80 final size:80
Alignment explanation
Indices: 41271035--41271241 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
41271025 AATTGAATGA
* * ** * * *
41271035 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
41271100 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
41271113 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
41271178 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
41271195 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
41271242 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:41279160 original size:40 final size:40
Alignment explanation
Indices: 41279101--41279308 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
41279091 CAATTGAATG
* * * *
41279101 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
41279141 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
41279181 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
41279221 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
41279261 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
41279301 ATATCCGG
1 ATATCCGG
41279309 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:41279239 original size:80 final size:80
Alignment explanation
Indices: 41279102--41279308 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
41279092 AATTGAATGA
* * ** * * *
41279102 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
41279167 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
41279180 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
41279245 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
41279262 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
41279309 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:41281189 original size:16 final size:15
Alignment explanation
Indices: 41281157--41281195 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
41281147 TGATAATAAC
41281157 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
41281173 TTATTATAATGTATAT
1 TAATTATAAT-TATAT
41281189 TAATTAT
1 TAATTAT
41281196 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:41281833 original size:24 final size:27
Alignment explanation
Indices: 41281795--41281848 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
41281785 TTCTCCTAAA
41281795 TTTCAAATTTATTTG-ATTATTTAAT-T
1 TTTCAAATTTATTTGAATTA-TTAATAT
41281821 TTTC-AATTT-TTTGAATTATTAATAT
1 TTTCAAATTTATTTGAATTATTAATAT
41281846 TTT
1 TTT
41281849 ATGAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.35
25 13 0.50
26 4 0.15
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTCAAATTTATTTGAATTATTAATAT
Found at i:41285761 original size:48 final size:48
Alignment explanation
Indices: 41285636--41285887 Score: 122
Period size: 48 Copynumber: 5.5 Consensus size: 48
41285626 AAGGTGCCAA
* * * *
41285636 AGCCATGTCCCAGACATGGTCTTACATGGAA-CCACACATCGAT----
1 AGCCATGTCCCAGACATGGTCTTATACGGAAGCCTCAAATCGATGCCG
* * *
41285679 -GCCATATCCCAAATATGGTCTTATAC-GAAGCCTCAAATCGATGCCG
1 AGCCATGTCCCAGACATGGTCTTATACGGAAGCCTCAAATCGATGCCG
* * *
41285725 ACGCCATGTCCCAGACATGGTCTTATACGGGA-CCTCATATTGAT----
1 A-GCCATGTCCCAGACATGGTCTTATACGGAAGCCTCAAATCGATGCCG
* * * * *
41285769 A-CCATGTCCTAGACATGGTCTTATACGAAATCACT-TAA-CGATGCTG
1 AGCCATGTCCCAGACATGGTCTTATACGGAAGC-CTCAAATCGATGCCG
* * * * * * ** * *
41285815 AAGCCATATCCCGGATATGGTCTTACACGGGA-TCTCGCATCAATGCCA
1 -AGCCATGTCCCAGACATGGTCTTATACGGAAGCCTCAAATCGATGCCG
*
41285863 ATGCCATGTCCTAGACATGGTCTTA
1 A-GCCATGTCCCAGACATGGTCTTA
41285888 CATGGGATCT
Statistics
Matches: 154, Mismatches: 36, Indels: 33
0.69 0.16 0.15
Matches are distributed among these distances:
41 3 0.02
42 60 0.39
43 2 0.01
44 3 0.02
46 2 0.01
47 3 0.02
48 79 0.51
49 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (48 bp):
AGCCATGTCCCAGACATGGTCTTATACGGAAGCCTCAAATCGATGCCG
Found at i:41285811 original size:90 final size:90
Alignment explanation
Indices: 41285630--41285887 Score: 241
Period size: 90 Copynumber: 2.8 Consensus size: 90
41285620 CCAAATAAGG
* * * * * * * * *
41285630 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGAACCACACATCGATGCCATATCCCAAATAT
1 TGCCGAAGCCATGTCCCAGACATGGTCTTACACGGGACCACATATTGATGCCATGTCCTAGACAT
41285695 GGTCTTATACGAAGCCTCAAATCGA
66 GGTCTTATACGAAGCCTCAAATCGA
* * * *
41285720 TGCCGACGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATTGATACCATGTCCTAGACAT
1 TGCCGAAGCCATGTCCCAGACATGGTCTTACACGGGACCACATATTGATGCCATGTCCTAGACAT
* *
41285785 GGTCTTATACGAAATCACT-TAA-CGA
66 GGTCTTATACG-AAGC-CTCAAATCGA
* * * * * *
41285810 TGCTGAAGCCATATCCCGGATATGGTCTTACACGGGATCTCGCATCAATGCCAATGCCATGTCCT
1 TGCCGAAGCCATGTCCCAGACATGGTCTTACACGGGA-C-CACAT-ATTG---ATGCCATGTCCT
41285875 AGACATGGTCTTA
60 AGACATGGTCTTA
41285888 CATGGGATCT
Statistics
Matches: 136, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
90 97 0.71
91 6 0.04
92 6 0.04
93 3 0.02
96 24 0.18
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (90 bp):
TGCCGAAGCCATGTCCCAGACATGGTCTTACACGGGACCACATATTGATGCCATGTCCTAGACAT
GGTCTTATACGAAGCCTCAAATCGA
Found at i:41291273 original size:2 final size:2
Alignment explanation
Indices: 41291262--41291293 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
41291252 ACTCTCTTTT
*
41291262 TA TA TT 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
41291294 AAAGCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:41291376 original size:25 final size:25
Alignment explanation
Indices: 41291326--41291377 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
41291316 ACTTTAATAC
* *
41291326 AAAATAACATTATTAAAATAATATA
1 AAAATAAAATTATTAAAATAAGATA
41291351 AAAATAAAATTATTACAAA-AAGATA
1 AAAATAAAATTATTA-AAATAAGATA
41291376 AA
1 AA
41291378 TTGGAAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATAAAATTATTAAAATAAGATA
Found at i:41292911 original size:14 final size:14
Alignment explanation
Indices: 41292889--41292921 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
41292879 AATGTACATG
41292889 ATAAA-ATTAAAAT
1 ATAAATATTAAAAT
41292902 ATAAATATTAAAAT
1 ATAAATATTAAAAT
41292916 A-AAATA
1 ATAAATA
41292922 ATAGTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAATATTAAAAT
Found at i:41294699 original size:17 final size:19
Alignment explanation
Indices: 41294677--41294711 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
41294667 GTGAATAAAA
41294677 ATTAAA-TAAGAA-AATAC
1 ATTAAATTAAGAATAATAC
41294694 ATTAAATTAAGAATAATA
1 ATTAAATTAAGAATAATA
41294712 AATGCACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (19 bp):
ATTAAATTAAGAATAATAC
Found at i:41295423 original size:41 final size:40
Alignment explanation
Indices: 41295365--41295453 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
41295355 TATAAAAAAA
* * **
41295365 TATAAAAATATGTAGAAATTATAAAAAAAATCATTGAATTT
1 TATAAAAATATGAAGAAATTA-AAAAAAAACCATAAAATTT
**
41295406 TATAAAAATTAT-AAGAAATTAATTAAAAACCATAAAATTT
1 TATAAAAA-TATGAAGAAATTAAAAAAAAACCATAAAATTT
41295446 TATAAAAA
1 TATAAAAA
41295454 CATAATTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 22 0.54
41 16 0.39
42 3 0.07
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (40 bp):
TATAAAAATATGAAGAAATTAAAAAAAAACCATAAAATTT
Found at i:41295652 original size:9 final size:9
Alignment explanation
Indices: 41295622--41295705 Score: 55
Period size: 10 Copynumber: 9.2 Consensus size: 9
41295612 TAAATTATTA
*
41295622 TTTATAAAT
1 TTTATAATT
*
41295631 TGTATAATAT
1 TTTATAAT-T
*
41295641 TTTATTATT
1 TTTATAATT
41295650 TTTAATAATT
1 TTT-ATAATT
*
41295660 TTTATAAAT
1 TTTATAATT
** *
41295669 GCTA-ATTT
1 TTTATAATT
41295677 TTTAT-ATT
1 TTTATAATT
*
41295685 TTTTTATATT
1 TTTATA-ATT
41295695 TTTATAATT
1 TTTATAATT
41295704 TT
1 TT
41295706 AGAATGCATT
Statistics
Matches: 55, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
8 10 0.18
9 22 0.40
10 23 0.42
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:41295696 original size:35 final size:37
Alignment explanation
Indices: 41295617--41295701 Score: 95
Period size: 36 Copynumber: 2.3 Consensus size: 37
41295607 AATAATAAAT
41295617 TATTATTTATAAATTGTATAATATTTTATTATTTTTAA
1 TATT-TTTATAAATTGTATAATATTTTATTATTTTTAA
* * *
41295655 TAATTTTTATAAA-TG-CTAATTTTTTA-TATTTTTTTA
1 T-ATTTTTATAAATTGTATAATATTTTATTA-TTTTTAA
41295691 TATTTTTATAA
1 TATTTTTATAA
41295702 TTTTAGAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 12 0.29
36 16 0.38
37 2 0.05
38 9 0.21
39 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (37 bp):
TATTTTTATAAATTGTATAATATTTTATTATTTTTAA
Found at i:41295797 original size:17 final size:16
Alignment explanation
Indices: 41295775--41295808 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
41295765 CATTGTGTAC
41295775 TTATTTTAAAAATATTT
1 TTATTTTAAAAAT-TTT
*
41295792 TTATTTTTAAAATTTT
1 TTATTTTAAAAATTTT
41295808 T
1 T
41295809 AGTTACTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTTAAAAATTTT
Found at i:41296294 original size:31 final size:31
Alignment explanation
Indices: 41296236--41296294 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
41296226 TGAAATGTGG
* * * *
41296236 TCCAATTAGAATGTGTCATATGGCATTTTCA
1 TCCAATTAAAAAGTGTCACATGACATTTTCA
*
41296267 TCCAATTAAAAAGTGTCACGTGACATTT
1 TCCAATTAAAAAGTGTCACATGACATTT
41296295 ACATGTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (31 bp):
TCCAATTAAAAAGTGTCACATGACATTTTCA
Done.