Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
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: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 24
Found at i:2228358 original size:24 final size:24
Alignment explanation
Indices: 2228324--2228370 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2228314 CTGAAACATC
2228324 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2228348 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2228371 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2229081 original size:20 final size:20
Alignment explanation
Indices: 2229053--2229421 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
2229043 AAATTTCAGT
* * * *
2229053 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2229073 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
2229093 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2229113 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2229133 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2229153 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2229173 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2229193 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2229213 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2229233 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
2229253 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2229273 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2229293 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
2229313 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
2229333 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2229353 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2229373 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
2229393 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
2229413 GTTGCGATT
1 GTTGCGATT
2229422 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:2232036 original size:6 final size:6
Alignment explanation
Indices: 2232027--2232069 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 6
2232017 ACTATTATAA
*
2232027 TTATTT TTATTA TTATTTT TTATTTT TTATTTT TTATTT TTAT
1 TTATTT TTATTT TTA-TTT TTA-TTT TTA-TTT TTATTT TTAT
2232070 AGGCCCACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 15 0.44
7 19 0.56
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:2232048 original size:13 final size:13
Alignment explanation
Indices: 2232021--2232069 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
2232011 TTATTTACTA
*
2232021 TTATAATTA-TTT
1 TTATTATTATTTT
2232033 TTATTATTATTTT
1 TTATTATTATTTT
*
2232046 TTATTTTTTATTTT
1 TTA-TTATTATTTT
*
2232060 TTATTTTTAT
1 TTATTATTAT
2232070 AGGCCCACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 8 0.24
13 13 0.39
14 12 0.36
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:2232051 original size:7 final size:7
Alignment explanation
Indices: 2232030--2232067 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
2232020 ATTATAATTA
2232030 TTTTTA-
1 TTTTTAT
*
2232036 TTATTAT
1 TTTTTAT
2232043 TTTTTAT
1 TTTTTAT
2232050 TTTTTAT
1 TTTTTAT
2232057 TTTTTAT
1 TTTTTAT
2232064 TTTT
1 TTTT
2232068 ATAGGCCCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:2236437 original size:23 final size:23
Alignment explanation
Indices: 2236372--2236440 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
2236362 CACCACAGCT
* *
2236372 CGTATAATTGCACCGAAATGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
2236395 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
2236418 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
2236441 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:2236627 original size:103 final size:102
Alignment explanation
Indices: 2236459--2236673 Score: 367
Period size: 103 Copynumber: 2.1 Consensus size: 102
2236449 TGTCCATAAG
* * *
2236459 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCAGAC
2236524 TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
* *
2236561 TGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTATTTCACCAGA
1 -GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCAGA
2236626 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
65 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
2236664 GAACCACATA
1 G-ACCACATA
2236674 GACCCTCGAC
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 1 0.01
103 105 0.99
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (102 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
Found at i:2241630 original size:23 final size:23
Alignment explanation
Indices: 2241604--2241672 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
2241594 CACCACAGCT
*
2241604 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
2241627 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
2241650 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
2241673 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:2241859 original size:103 final size:103
Alignment explanation
Indices: 2241688--2241905 Score: 364
Period size: 103 Copynumber: 2.1 Consensus size: 103
2241678 TAATGTCCAT
* * * *
2241688 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCATCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
*
2241753 GACTTCACACATGTTTAAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
*
2241791 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
*
2241856 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
*
2241894 AAAGACCACATA
1 AAGGACCACATA
2241906 GACCCTCGAC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
Found at i:2245554 original size:106 final size:109
Alignment explanation
Indices: 2245353--2245569 Score: 262
Period size: 106 Copynumber: 2.0 Consensus size: 109
2245343 TGGTGGTTGT
* ** *
2245353 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCATTTTCATTCAGAGTCAA
1 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTCCA-TAGCATTCAGAGCCAA
* *
2245418 TTTCAACTTCACAGCGAATGATATTAGACTCGAGACAGCACAAGC
65 TTTCAACTTCACAGCGAAGGATATTAGACTCGAAACAGCACAAGC
* ** *
2245463 TCAACTTCACAGTGAAGGGGCGGTTGGCTGTCAACAAACAA-TTTCCA-AGC-TTCAGAGCCAAT
1 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTCCATAGCATTCAGAGCCAAT
** * *
2245525 TTCAACTTCAC-GACTTAGGATATTGGACTCGAAATAGCACAAGC
66 TTCAACTTCACAG-CGAAGGATATTAGACTCGAAACAGCACAAGC
2245569 T
1 T
2245570 TGGATTTCAA
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
105 1 0.01
106 48 0.52
107 1 0.01
109 5 0.05
110 37 0.40
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (109 bp):
TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTCCATAGCATTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTAGACTCGAAACAGCACAAGC
Found at i:2246438 original size:39 final size:36
Alignment explanation
Indices: 2246395--2246547 Score: 150
Period size: 39 Copynumber: 4.2 Consensus size: 36
2246385 TCGGTCGCCT
* *
2246395 TTGAGATTGTTTCCCTCGAAACAAAAGATTTTGTCTCGC
1 TTGAGATGGTTTCCCTCGAAAC--AA-ATTTTGTCTCTC
* *
2246434 TTGAGATGGTTTCTCTCAAAACAAAAGATTTTGTCTCTC
1 TTGAGATGGTTTCCCTCGAAAC--AA-ATTTTGTCTCTC
** *
2246473 TTGAGACAG-TT--CTTGAAACAAATTTTGTCTCTC
1 TTGAGATGGTTTCCCTCGAAACAAATTTTGTCTCTC
* *
2246506 TTGAGATGGTTTCCTTTGAAACAAATTTTGTCTCTC
1 TTGAGATGGTTTCCCTCGAAACAAATTTTGTCTCTC
2246542 TTGAGA
1 TTGAGA
2246548 CAGTTTCTCT
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
33 19 0.19
34 4 0.04
36 33 0.33
38 2 0.02
39 42 0.42
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (36 bp):
TTGAGATGGTTTCCCTCGAAACAAATTTTGTCTCTC
Found at i:2246525 original size:36 final size:36
Alignment explanation
Indices: 2246419--2246564 Score: 156
Period size: 36 Copynumber: 4.0 Consensus size: 36
2246409 CTCGAAACAA
* * **
2246419 AAGATTTTGTCTCGCTTGAGATGGTTTCTCTCAAAAC
1 AAGATTTTGTCTCTCTTGAGATAGTTTCT-TTGAAAC
*
2246456 AAAAGATTTTGTCTCTCTTGAGACAG-TTC-TTGAAAC
1 --AAGATTTTGTCTCTCTTGAGATAGTTTCTTTGAAAC
*
2246492 AA-ATTTTGTCTCTCTTGAGATGGTTTCCTTTGAAAC
1 AAGATTTTGTCTCTCTTGAGATAGTTT-CTTTGAAAC
*
2246528 AA-ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
1 AAGATTTTGTCTCTCTTGAGATAGTTTCT-TTGAAAC
2246564 A
1 A
2246565 CCAACCTTTG
Statistics
Matches: 94, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
33 19 0.20
34 4 0.04
35 3 0.03
36 44 0.47
38 3 0.03
39 21 0.22
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (36 bp):
AAGATTTTGTCTCTCTTGAGATAGTTTCTTTGAAAC
Found at i:2246564 original size:72 final size:71
Alignment explanation
Indices: 2246422--2246552 Score: 196
Period size: 72 Copynumber: 1.9 Consensus size: 71
2246412 GAAACAAAAG
2246422 ATTTTGTCTCGCTTGAGATGGTTTCTCTCAAAACAAAAGATTTTGTCTCTCTTGAGACAGTTCTT
1 ATTTTGTCTCGCTTGAGATGGTTTCTCTCAAAAC-AAAGATTTTGTCTCTCTTGAGACAGTTCTT
2246487 GAAACAA
65 GAAACAA
* **
2246494 ATTTTGTCTCTCTTGAGATGGTTTC-CTTTGAAAC-AA-ATTTTGTCTCTCTTGAGACAGTT
1 ATTTTGTCTCGCTTGAGATGGTTTCTC-TCAAAACAAAGATTTTGTCTCTCTTGAGACAGTT
2246553 TCTCTTGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
69 23 0.42
70 2 0.04
71 1 0.02
72 29 0.53
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (71 bp):
ATTTTGTCTCGCTTGAGATGGTTTCTCTCAAAACAAAGATTTTGTCTCTCTTGAGACAGTTCTTG
AAACAA
Found at i:2246704 original size:34 final size:34
Alignment explanation
Indices: 2246617--2246731 Score: 155
Period size: 33 Copynumber: 3.4 Consensus size: 34
2246607 CCTGGAAACA
*
2246617 GTTTCTCTTGAAACACAAAAAATA--TTTGAAATC
1 GTTTCTCTTGAAACACAAAAAA-ACCTTTGAAATT
* *
2246650 GTTTCTCTTAAAACGC-AAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAACCTTTGAAATT
* *
2246683 GTTCCTCTTGAAACACAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAACCTTTGAAATT
2246717 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
2246732 TAAAGACCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
31 1 0.01
32 5 0.07
33 35 0.49
34 30 0.42
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (34 bp):
GTTTCTCTTGAAACACAAAAAAACCTTTGAAATT
Found at i:2250662 original size:17 final size:17
Alignment explanation
Indices: 2250640--2250673 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2250630 TCAAGCAAGG
2250640 CGAGTTGAAAAAGGAAA
1 CGAGTTGAAAAAGGAAA
2250657 CGAGTTGAAAAAGGAAA
1 CGAGTTGAAAAAGGAAA
2250674 ATAAAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.29, T:0.12
Consensus pattern (17 bp):
CGAGTTGAAAAAGGAAA
Found at i:2252154 original size:11 final size:11
Alignment explanation
Indices: 2252132--2252168 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
2252122 TCAAAGAAGA
2252132 TTAAAA-AAAT
1 TTAAAATAAAT
2252142 TTAAAATAAAT
1 TTAAAATAAAT
2252153 TTAAAATAAAAT
1 TTAAAAT-AAAT
2252165 TTAA
1 TTAA
2252169 TATGGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 6 0.24
11 11 0.44
12 8 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TTAAAATAAAT
Found at i:2252983 original size:23 final size:23
Alignment explanation
Indices: 2252956--2253011 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
2252946 ATGTCATATG
* ** *
2252956 CCACGTCAGCTGTCATGTTATCA
1 CCACGTCAGCTGCCACATCATCA
*
2252979 CCACGTCAACTGCCACATCATCA
1 CCACGTCAGCTGCCACATCATCA
2253002 CCACGTCAGC
1 CCACGTCAGC
2253012 GCTGCCTAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.39, G:0.14, T:0.21
Consensus pattern (23 bp):
CCACGTCAGCTGCCACATCATCA
Found at i:2254863 original size:34 final size:33
Alignment explanation
Indices: 2254819--2254915 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 33
2254809 AACTATACTG
2254819 CTATTCGAACCAAAATTGTATTGTTGTTTCTCTCA
1 CTATTCGAACCAAAATTGTATTGTTGTTT-T-TCA
* *
2254854 CTATT-GAACCAAAATTGTATTGCTATTTTTCA
1 CTATTCGAACCAAAATTGTATTGTTGTTTTTCA
* * *
2254886 CTGTTCGAATCAAAATTGTAATGTTGTTTT
1 CTATTCGAACCAAAATTGTATTGTTGTTTT
2254916 CTACTGTTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 7 0.13
33 21 0.39
34 21 0.39
35 5 0.09
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (33 bp):
CTATTCGAACCAAAATTGTATTGTTGTTTTTCA
Found at i:2254905 original size:33 final size:35
Alignment explanation
Indices: 2254819--2254905 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 35
2254809 AACTATACTG
* *
2254819 CTATTCGAACCAAAATTGTATTGTTGTTTCTCTCA
1 CTATTCGAACCAAAATTGTATTGCTATTTCTCTCA
2254854 CTATT-GAACCAAAATTGTATTGCTATTT-T-TCA
1 CTATTCGAACCAAAATTGTATTGCTATTTCTCTCA
* *
2254886 CTGTTCGAATCAAAATTGTA
1 CTATTCGAACCAAAATTGTA
2254906 ATGTTGTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
32 7 0.15
33 14 0.30
34 21 0.45
35 5 0.11
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (35 bp):
CTATTCGAACCAAAATTGTATTGCTATTTCTCTCA
Found at i:2255675 original size:18 final size:18
Alignment explanation
Indices: 2255652--2255708 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
2255642 ATGAAGTATA
2255652 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
* * *
2255670 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGGATTG
2255684 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
2255702 ATTTATT
1 ATTTATT
2255709 TTAAATAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 9 0.31
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.55
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGGATTG
Found at i:2255690 original size:32 final size:32
Alignment explanation
Indices: 2255649--2255965 Score: 202
Period size: 32 Copynumber: 10.0 Consensus size: 32
2255639 TGGATGAAGT
2255649 ATAATTTATTAGTATGGATTGATTTATTTTAA
1 ATAATTTATTAGTATGGATTGATTTATTTTAA
2255681 ATAATTTATTAGTATGGATTGATTTATTTTAA
1 ATAATTTATTAGTATGGATTGATTTATTTTAA
*
2255713 ATAATTTATTTGTATGGATTGATTTATTTTAA
1 ATAATTTATTAGTATGGATTGATTTATTTTAA
** ** *
2255745 A-ATATAGATT-G-ATTTATT-ATTGTAGTTGTATGGA
1 ATA-ATTTATTAGTATGGATTGATT-TA-TT-T-T-AA
* * * * * *
2255779 TTGATTTATT--T-T-AAATAATTTATTAGTATGGA
1 ATAATTTATTAGTATGGATTGATTTATT--T-T-AA
* * *
2255811 TTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATAATTTA--TT--AGTATGGATTGATTTATTTTAA
*
2255847 ATAATTTATTAGTATGAATTGATTTA-TTT--
1 ATAATTTATTAGTATGGATTGATTTATTTTAA
2255876 -TAA---A--A-TATGGATTGATTTATTTTAA
1 ATAATTTATTAGTATGGATTGATTTATTTTAA
*
2255901 ATAATTTATTAGTATAGATTGATTTATTTTAA
1 ATAATTTATTAGTATGGATTGATTTATTTTAA
** *
2255933 ATAATTTATTTTTATGAATTGATTTATTTTAA
1 ATAATTTATTAGTATGGATTGATTTATTTTAA
2255965 A
1 A
2255966 ATATGGATTG
Statistics
Matches: 231, Mismatches: 26, Indels: 56
0.74 0.08 0.18
Matches are distributed among these distances:
22 13 0.06
23 4 0.02
25 1 0.00
26 3 0.01
28 3 0.01
29 4 0.02
30 7 0.03
31 10 0.04
32 151 0.65
33 5 0.02
34 10 0.04
36 7 0.03
37 1 0.00
38 2 0.01
39 1 0.00
40 9 0.04
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
ATAATTTATTAGTATGGATTGATTTATTTTAA
Found at i:2255787 original size:80 final size:80
Alignment explanation
Indices: 2255692--2255842 Score: 284
Period size: 80 Copynumber: 1.9 Consensus size: 80
2255682 TAATTTATTA
*
2255692 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGA
2255757 TTTATTATTGTAGTT
66 TTTATTATTGTAGTT
*
2255772 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGA
2255837 TTTATT
66 TTTATT
2255843 TTAAATAATT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (80 bp):
GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGA
TTTATTATTGTAGTT
Found at i:2255830 original size:22 final size:22
Alignment explanation
Indices: 2255805--2255847 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2255795 AATTTATTAG
2255805 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2255827 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2255848 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2255838 original size:54 final size:54
Alignment explanation
Indices: 2255661--2256077 Score: 426
Period size: 54 Copynumber: 7.6 Consensus size: 54
2255651 AATTTATTAG
2255661 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--A-AA---A
* * * ***
2255721 TTTGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTG
1 ----TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
2255773 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2255827 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2255881 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * * **
2255934 TA---ATTTATTT-TTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTATAGTTG
1 TATGGATTGATTTATT-TTAAATAATTTA--TT--AGTATGGATTGATTTATT-TTA-A--AA
2255993 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2256047 TATGGATTAATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
2256078 TTGTAGTTGT
Statistics
Matches: 300, Mismatches: 32, Indels: 52
0.78 0.08 0.14
Matches are distributed among these distances:
48 18 0.06
49 4 0.01
50 18 0.06
52 4 0.01
53 8 0.03
54 154 0.51
55 10 0.03
56 1 0.00
57 10 0.03
58 24 0.08
59 5 0.02
60 4 0.01
62 18 0.06
63 4 0.01
64 18 0.06
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:2255884 original size:22 final size:22
Alignment explanation
Indices: 2255859--2255901 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2255849 AATTTATTAG
2255859 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
2255881 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
2255902 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:2255952 original size:14 final size:14
Alignment explanation
Indices: 2255890--2255944 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2255880 ATATGGATTG
2255890 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
2255904 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
2255922 ATTTATTTTAAATA
1 ATTTATTTTAAATA
2255936 ATTTATTTT
1 ATTTATTTT
2255945 TATGAATTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.55
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.27
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:2256043 original size:220 final size:220
Alignment explanation
Indices: 2255661--2256077 Score: 780
Period size: 220 Copynumber: 1.9 Consensus size: 220
2255651 AATTTATTAG
*
2255661 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTGT
* *
2255726 ATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
66 ATGAATTGATTTATTTTAAAATATAGATTGATTTATTATTATAGTTGTATGGATTGATTTATTTT
*
2255791 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
131 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTAT
2255856 TAGTATGAATTGATTTATTTTAAAA
196 TAGTATGAATTGATTTATTTTAAAA
*
2255881 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTTT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTGT
*
2255946 ATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTATAGTTGTATGGATTGATTTATTTT
66 ATGAATTGATTTATTTTAAAATATAGATTGATTTATTATTATAGTTGTATGGATTGATTTATTTT
2256011 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTAT
131 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTAT
2256076 TA
196 TA
2256078 TTGTAGTTGT
Statistics
Matches: 191, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
220 191 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (220 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTGT
ATGAATTGATTTATTTTAAAATATAGATTGATTTATTATTATAGTTGTATGGATTGATTTATTTT
AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAATTTATTTTAAATAATTTAT
TAGTATGAATTGATTTATTTTAAAA
Found at i:2256077 original size:22 final size:22
Alignment explanation
Indices: 2256025--2256067 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2256015 AATTTATTAG
*
2256025 TATGGATTGATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
2256047 TATGGATTAATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
2256068 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:2256127 original size:31 final size:31
Alignment explanation
Indices: 2256092--2256150 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2256082 AGTTGTATGG
* * *
2256092 ATTATTTAAATTTCATTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
2256123 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
2256151 CTTTTAAGTT
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:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:2256966 original size:16 final size:16
Alignment explanation
Indices: 2256923--2256967 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
2256913 TAATAAATAA
*
2256923 ACGAACATAAACGGAC
1 ACGAACATAAATGGAC
2256939 ACGAACATAAATGGAC
1 ACGAACATAAATGGAC
*
2256955 ATGAACATAAATG
1 ACGAACATAAATG
2256968 AACAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (16 bp):
ACGAACATAAATGGAC
Found at i:2257071 original size:23 final size:23
Alignment explanation
Indices: 2257028--2257071 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2257018 ATGTTCGTTC
**
2257028 ATAAACGAACATAAATTAACATA
1 ATAAACGAACATAAACGAACATA
*
2257051 ATAAATGAACATAAACGAACA
1 ATAAACGAACATAAACGAACA
2257072 ACACAAACAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.14, G:0.07, T:0.18
Consensus pattern (23 bp):
ATAAACGAACATAAACGAACATA
Found at i:2257356 original size:14 final size:14
Alignment explanation
Indices: 2257337--2257389 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
2257327 GTCCTTTGTT
2257337 CGAACATAAATGAA
1 CGAACATAAATGAA
2257351 CGAACATAAAT---
1 CGAACATAAATGAA
2257362 -GAACATAAATGAA
1 CGAACATAAATGAA
* *
2257375 TGAACATAAACGAA
1 CGAACATAAATGAA
2257389 C
1 C
2257390 ATATAATCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 10 0.30
14 23 0.70
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:2257367 original size:24 final size:24
Alignment explanation
Indices: 2257337--2257402 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
2257327 GTCCTTTGTT
2257337 CGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACATAAA
* *
2257361 TGAACATAAATGAATGAACATAAA
1 CGAACATAAATGAACGAACATAAA
2257385 CGAACATATAATCGAACG
1 CGAACATA-AAT-GAACG
2257403 TTCACGAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
24 29 0.81
25 3 0.08
26 4 0.11
ACGTcount: A:0.55, C:0.15, G:0.14, T:0.17
Consensus pattern (24 bp):
CGAACATAAATGAACGAACATAAA
Found at i:2261110 original size:38 final size:38
Alignment explanation
Indices: 2261059--2261133 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
2261049 ATCGTTCCGA
*
2261059 TCGGATATAATAGCGAAGGGGTGCCTTTCGGAATTTGG
1 TCGGATATAATAGCGAAGGGGTGCCTTTCAGAATTTGG
*
2261097 TCGGATATAATAGCGAAGTGGTGCCTTTCAGAATTTG
1 TCGGATATAATAGCGAAGGGGTGCCTTTCAGAATTTG
2261134 TTTCGGAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (38 bp):
TCGGATATAATAGCGAAGGGGTGCCTTTCAGAATTTGG
Found at i:2261195 original size:75 final size:75
Alignment explanation
Indices: 2261109--2261258 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
2261099 GGATATAATA
*
2261109 GCGAAGTGGTGCCTTTCAGAATTTGTTTCGGAGGAGGATTAGAGGGGTCAGAGCCTACCCTTCTT
1 GCGAAGAGGTGCCTTTCAGAATTTGTTTCGGAGGAGGATTAGAGGGGTCAGAGCCTACCCTTCTT
2261174 GAGATAGCCT
66 GAGATAGCCT
*
2261184 GCGAAGAGGTGCCTTTCAGAATTTGTTTCGGAGGGGGATTAGAGGGGTCAGAGCCTACCCTTCTT
1 GCGAAGAGGTGCCTTTCAGAATTTGTTTCGGAGGAGGATTAGAGGGGTCAGAGCCTACCCTTCTT
2261249 GAGATAGCCT
66 GAGATAGCCT
2261259 ATGCCTTCGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (75 bp):
GCGAAGAGGTGCCTTTCAGAATTTGTTTCGGAGGAGGATTAGAGGGGTCAGAGCCTACCCTTCTT
GAGATAGCCT
Found at i:2266765 original size:67 final size:67
Alignment explanation
Indices: 2266690--2266824 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
2266680 AAAAAATAAA
2266690 AATAGTGTATTAGCTCTAACCATTAAAAAAGTTACACAAAGCTAATATATACAAACGAACTAAAA
1 AATAGTGTATTAGCTCTAACCATTAAAAAAGTTACACAAAGCTAATATATACAAACGAACTAAAA
2266755 AT
66 AT
2266757 AATAGTGTATTAGCTCTAACCATTAAAAAAGTTACACAAAGCTAATATATACAAACGAACTAAAA
1 AATAGTGTATTAGCTCTAACCATTAAAAAAGTTACACAAAGCTAATATATACAAACGAACTAAAA
2266822 AT
66 AT
2266824 A
1 A
2266825 GAAACTTTGA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (67 bp):
AATAGTGTATTAGCTCTAACCATTAAAAAAGTTACACAAAGCTAATATATACAAACGAACTAAAA
AT
Found at i:2280267 original size:18 final size:18
Alignment explanation
Indices: 2280244--2280284 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2280234 ATTTGAATTG
2280244 ACCCTAAAAGTAGAAATA
1 ACCCTAAAAGTAGAAATA
2280262 ACCCTAAAAGTAGAAATA
1 ACCCTAAAAGTAGAAATA
2280280 ACCCT
1 ACCCT
2280285 TGAAAAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.51, C:0.22, G:0.10, T:0.17
Consensus pattern (18 bp):
ACCCTAAAAGTAGAAATA
Found at i:2296300 original size:11 final size:10
Alignment explanation
Indices: 2296270--2296306 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
2296260 GGACCGACTG
2296270 AAAACCGGAA
1 AAAACCGGAA
*
2296280 AAAATCGGAA
1 AAAACCGGAA
*
2296290 AAAACCGGGA
1 AAAACCGGAA
2296300 AAAACCG
1 AAAACCG
2296307 CCAATTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.57, C:0.19, G:0.22, T:0.03
Consensus pattern (10 bp):
AAAACCGGAA
Found at i:2298533 original size:31 final size:31
Alignment explanation
Indices: 2298498--2298564 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
2298488 GATGATCACG
* *
2298498 TCTTAATTAAATAAAAACGAAAGTGACAATA
1 TCTTAACTAAATAAAAACGAAAATGACAATA
2298529 TCTTAACTAAATAAAAACGAAAATGACAATA
1 TCTTAACTAAATAAAAACGAAAATGACAATA
2298560 TCTTA
1 TCTTA
2298565 TGTTTTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (31 bp):
TCTTAACTAAATAAAAACGAAAATGACAATA
Found at i:2298591 original size:29 final size:29
Alignment explanation
Indices: 2298550--2298608 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2298540 TAAAAACGAA
2298550 AATGACAATATCTTATGTTTTTTGAAATC
1 AATGACAATATCTTATGTTTTTTGAAATC
2298579 AATGACAATATCTTATGTTTTTTGAAATC
1 AATGACAATATCTTATGTTTTTTGAAATC
2298608 A
1 A
2298609 GTAATCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (29 bp):
AATGACAATATCTTATGTTTTTTGAAATC
Found at i:2298618 original size:29 final size:29
Alignment explanation
Indices: 2298554--2298622 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
2298544 AACGAAAATG
*
2298554 ACAATATCTTATGTTTTTTGAAATCAATG
1 ACAATATCTTATGTTTTTTGAAATCAATA
*
2298583 ACAATATCTTATGTTTTTTGAAATCAGTA
1 ACAATATCTTATGTTTTTTGAAATCAATA
2298612 ATC-ATATCTTA
1 A-CAATATCTTA
2298623 ATTAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 36 0.97
30 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.45
Consensus pattern (29 bp):
ACAATATCTTATGTTTTTTGAAATCAATA
Found at i:2301257 original size:30 final size:29
Alignment explanation
Indices: 2301199--2301346 Score: 115
Period size: 30 Copynumber: 5.0 Consensus size: 29
2301189 TAAAATGTTT
*
2301199 TAAAGTTAAGATAAGAATAAAATATATTTAA
1 TAAA-TTAAGATAA-AATATAATATATTTAA
* * * *
2301230 TAATTTAAAATAATAATATAATGTATTTAG
1 TAAATTAAGATAA-AATATAATATATTTAA
*
2301260 TAAATTAAGATAAAATAT-ATACT-TTGAAAA
1 TAAATTAAGATAAAATATAATA-TATT--TAA
* *
2301290 TAAATTAAGTTAATAATAAAATATATTTAA
1 TAAATTAAGATAA-AATATAATATATTTAA
* *
2301320 TAAGTTAATATAAAATAT-ATAT-TTTAA
1 TAAATTAAGATAAAATATAATATATTTAA
2301347 AGTTAATATA
Statistics
Matches: 93, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
27 5 0.05
28 8 0.09
29 10 0.11
30 57 0.61
31 8 0.09
32 5 0.05
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.39
Consensus pattern (29 bp):
TAAATTAAGATAAAATATAATATATTTAA
Found at i:2301292 original size:60 final size:60
Alignment explanation
Indices: 2301228--2301340 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
2301218 AAATATATTT
* * * *
2301228 AATAATTTAAAATAATAATATAATGTATTTAGTAAATTAAGATAAAATATATACTTTGAA
1 AATAAATTAAAATAATAATAAAATATATTTAATAAATTAAGATAAAATATATACTTTGAA
** * *
2301288 AATAAATTAAGTTAATAATAAAATATATTTAATAAGTTAATATAAAATATATA
1 AATAAATTAAAATAATAATAAAATATATTTAATAAATTAAGATAAAATATATA
2301341 TTTTAAAGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (60 bp):
AATAAATTAAAATAATAATAAAATATATTTAATAAATTAAGATAAAATATATACTTTGAA
Found at i:2301349 original size:25 final size:26
Alignment explanation
Indices: 2301295--2301364 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
2301285 GAAAATAAAT
2301295 TAAGTTAATA-ATAAAATATATTTAA
1 TAAGTTAATATATAAAATATATTTAA
*
2301320 TAAGTTAATATA-AAATATATATTTTA
1 TAAGTTAATATATAAA-ATATATTTAA
*
2301346 -AAGTTAATATATATAATAT
1 TAAGTTAATATATAAAATAT
2301365 TATGAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
25 28 0.70
26 12 0.30
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (26 bp):
TAAGTTAATATATAAAATATATTTAA
Found at i:2301374 original size:29 final size:25
Alignment explanation
Indices: 2301289--2301384 Score: 83
Period size: 25 Copynumber: 3.8 Consensus size: 25
2301279 TACTTTGAAA
*
2301289 ATAAATTAAGTTAATA-ATAAA-AT
1 ATAATTTAAGTTAATATATAAATAT
*
2301312 ATATTTAATAAGTTAATATA-AAATAT
1 ATAATT--TAAGTTAATATATAAATAT
*
2301338 ATATTTTAAAGTTAATATATATAATATT
1 ATAATTT-AAGTTAATATATA-AATA-T
2301366 ATGAATTTAAGTTAA-ATAT
1 AT-AATTTAAGTTAATATAT
2301385 TTATACACTA
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
23 4 0.07
24 1 0.02
25 24 0.39
26 10 0.16
27 8 0.13
28 10 0.16
29 4 0.07
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (25 bp):
ATAATTTAAGTTAATATATAAATAT
Found at i:2304525 original size:20 final size:20
Alignment explanation
Indices: 2304500--2304553 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
2304490 GATCAACAAA
2304500 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
2304520 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
*
2304540 TTTGCAACGCGAAT
1 TTCGCAACGCGAAT
2304554 ATGTAAATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:2304594 original size:21 final size:21
Alignment explanation
Indices: 2304557--2304607 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
2304547 CGCGAATATG
2304557 TAAA-TCGCATTGCGATTTTC
1 TAAATTCGCATTGCGATTTTC
* *
2304577 TAAATTCGCGTTGTGATTTTC
1 TAAATTCGCATTGCGATTTTC
*
2304598 CAAATTCGCA
1 TAAATTCGCA
2304608 ACGCGATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (21 bp):
TAAATTCGCATTGCGATTTTC
Found at i:2304623 original size:20 final size:20
Alignment explanation
Indices: 2304598--2304668 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
2304588 TGTGATTTTC
*
2304598 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
*
2304618 CAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
2304638 CAAATTCACAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
2304658 CAAATTCGCAA
1 CAAATTCGCAA
2304669 TTGAATTTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.18
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:2304681 original size:19 final size:19
Alignment explanation
Indices: 2304657--2304707 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
2304647 AACGCGAAAG
*
2304657 TCAAATTCGCAATTGAATT
1 TCAAATTCGCAACTGAATT
2304676 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
2304695 TCAAATTCACAAC
1 TCAAATTCGCAAC
2304708 AGGTTTTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:2305592 original size:12 final size:12
Alignment explanation
Indices: 2305559--2305595 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
2305549 ATATAACCCT
*
2305559 GAAGAAGAAAAA
1 GAAGAAGAATAA
2305571 GAAGAAGAATAA
1 GAAGAAGAATAA
2305583 GAAGAAGAATAA
1 GAAGAAGAATAA
2305595 G
1 G
2305596 TCCCCGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (12 bp):
GAAGAAGAATAA
Found at i:2307692 original size:18 final size:18
Alignment explanation
Indices: 2307658--2307693 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2307648 AAGCAAAAGG
**
2307658 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
2307676 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
2307694 CAATTGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:2308002 original size:20 final size:20
Alignment explanation
Indices: 2307977--2308046 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
2307967 ATGTTGCGAT
*
2307977 CAACGCGAAAGTCAAATTCA
1 CAACGCGAAAGTCAAATTCG
*
2307997 CAACGCGAAAGACAAATTCG
1 CAACGCGAAAGTCAAATTCG
* * *
2308017 TAATGCGATAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
2308037 CAACGCGAAA
1 CAACGCGAAA
2308047 TCGCAAACCG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.16
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:2308201 original size:14 final size:13
Alignment explanation
Indices: 2308182--2308231 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
2308172 AATCAACTAA
2308182 ACATTATTGTGGGT
1 ACATTATT-TGGGT
*
2308196 ACATTATTT--GA
1 ACATTATTTGGGT
*
2308207 ACATTGTTATGGGT
1 ACATTATT-TGGGT
2308221 ACATTATTTGG
1 ACATTATTTGG
2308232 AAAAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 8 0.28
12 1 0.03
13 4 0.14
14 16 0.55
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (13 bp):
ACATTATTTGGGT
Found at i:2308209 original size:25 final size:25
Alignment explanation
Indices: 2308181--2308230 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2308171 AAATCAACTA
*
2308181 AACATTATTGTGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
*
2308206 AACATTGTTATGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
2308231 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
AACATTATTATGGGTACATTATTTG
Found at i:2308639 original size:18 final size:18
Alignment explanation
Indices: 2308618--2308654 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2308608 GTAATTGGAG
2308618 TTTGAATTTCAATTTCAA
1 TTTGAATTTCAATTTCAA
* *
2308636 TTTGAGTTTGAATTTCAA
1 TTTGAATTTCAATTTCAA
2308654 T
1 T
2308655 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTCAATTTCAA
Found at i:2308661 original size:24 final size:24
Alignment explanation
Indices: 2308610--2308662 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2308600 TTTCATATGT
* * *
2308610 AATTGGAGTTTGAATTTCAATTTC
1 AATTTGAGTTTGAATTTCAATATA
2308634 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTCAATATA
2308658 AATTT
1 AATTT
2308663 CGGCTCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTCAATATA
Found at i:2309009 original size:39 final size:39
Alignment explanation
Indices: 2308966--2309049 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
2308956 GATGCTCATC
*
2308966 AAAATCCAAAGCTCATATGGTGTCAAGCAAAAGGAAATA
1 AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATA
* *
2309005 AAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAAATC
1 AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATA
2309044 AAAATC
1 AAAATC
2309050 TACAACTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (39 bp):
AAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAAATA
Found at i:2310837 original size:21 final size:21
Alignment explanation
Indices: 2310813--2310881 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
2310803 GGACCTTTTA
2310813 AACGATGACG-GAGGCCTCTTG
1 AACGATGA-GAGAGGCCTCTTG
* *
2310834 AACGGTGAGAGAGGCTTCTTCG
1 AACGATGAGAGAGGCCTCTT-G
* *
2310856 -ATGATGAGAGGGGCCTCTTG
1 AACGATGAGAGAGGCCTCTTG
2310876 AACGAT
1 AACGAT
2310882 AGGAGGTGAC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 2 0.05
21 35 0.92
22 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.22
Consensus pattern (21 bp):
AACGATGAGAGAGGCCTCTTG
Found at i:2311202 original size:21 final size:21
Alignment explanation
Indices: 2311178--2311227 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
2311168 TGAAACAATC
*
2311178 TCACGTAGAGCGGCA-ACCTCA
1 TCACGTAGAGCAG-ATACCTCA
* *
2311199 TCACGTAAAGTAGATACCTCA
1 TCACGTAGAGCAGATACCTCA
2311220 TCACGTAG
1 TCACGTAG
2311228 TGCACCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (21 bp):
TCACGTAGAGCAGATACCTCA
Found at i:2311312 original size:63 final size:63
Alignment explanation
Indices: 2311193--2311312 Score: 138
Period size: 63 Copynumber: 1.9 Consensus size: 63
2311183 TAGAGCGGCA
* * **
2311193 ACCTCATCACGTAAAGTAGATACCTCATCACGTAGTGCACCATTTTCATCGTGTAAAAAATCC
1 ACCTCATCACGTAAAGTAGATACCTCATCACGCAGTGCACCATTATCATCACGTAAAAAATCC
* *
2311256 ACCTCA-CAACGTAAAGATCGA-ACCTCATCACGCCA-TGCACCATTATCTTCACGTAAA
1 ACCTCATC-ACGTAAAG-TAGATACCTCATCACG-CAGTGCACCATTATCATCACGTAAA
2311313 GTACCGACCT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.02
63 43 0.90
64 4 0.08
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (63 bp):
ACCTCATCACGTAAAGTAGATACCTCATCACGCAGTGCACCATTATCATCACGTAAAAAATCC
Found at i:2313408 original size:22 final size:22
Alignment explanation
Indices: 2313383--2313430 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
2313373 GGAGATAGAT
*
2313383 GGATTTCGTTGGAAATGGGGAC
1 GGATTTCGTCGGAAATGGGGAC
* * *
2313405 GGATTTTGTCGGAGATGGTGAC
1 GGATTTCGTCGGAAATGGGGAC
2313427 GGAT
1 GGAT
2313431 GTCGCCGTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.08, G:0.42, T:0.29
Consensus pattern (22 bp):
GGATTTCGTCGGAAATGGGGAC
Found at i:2313583 original size:20 final size:20
Alignment explanation
Indices: 2313558--2313643 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
2313548 GCGTAAAAAC
*
2313558 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
2313578 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
** **
2313598 ATTTGGAAAATCGCAATGCG-
1 ATTT-GACTATCGCGTTGCGA
2313618 ATTTG-CATATTCGCGTTGCGA
1 ATTTGAC-TA-TCGCGTTGCGA
2313639 ATTTG
1 ATTTG
2313644 TTGGTCATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 35 0.66
21 16 0.30
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:2314545 original size:20 final size:19
Alignment explanation
Indices: 2314522--2314567 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
2314512 TGATATAACA
2314522 GGTAAAAATATGACAAAACC
1 GGTAAAAA-ATGACAAAACC
* *
2314542 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGACAAAACC
2314562 GGTAAA
1 GGTAAA
2314568 GAGCTATCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGACAAAACC
Found at i:2314618 original size:182 final size:184
Alignment explanation
Indices: 2314414--2314749 Score: 586
Period size: 182 Copynumber: 1.8 Consensus size: 184
2314404 AACTTATCGA
2314414 TACTTTAATATAAGGATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAACGCCTATAAAGT
1 TACTTTAATATAAGGATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAACGCCTATAAAGT
* *
2314479 GTCGATACTTTATAAAAATGTATTGATCCACAATGATATAACAGGTAAAAATATGACAAAACCGG
66 GTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGG
2314544 TATC-AAA-ATGATAAAACCGGTAAAGAGCTATCGGATATATTTAAAGTGTCGG
131 TATCAAAATATGATAAAACCGGTAAAGAGCTATCGGATATATTTAAAGTGTCGG
* * *
2314596 TACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGT
1 TACTTTAATATAAGGATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAACGCCTATAAAGT
* *
2314661 GTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGG
66 GTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGG
*
2314726 TATCAAAATATGATAAAACTGGTA
131 TATCAAAATATGATAAAACCGGTA
2314750 TCAAAATGAT
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
182 127 0.88
183 3 0.02
184 14 0.10
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (184 bp):
TACTTTAATATAAGGATCGACACTTTGTGAATTTAAAAGAGAAGCAATTTTAACGCCTATAAAGT
GTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGG
TATCAAAATATGATAAAACCGGTAAAGAGCTATCGGATATATTTAAAGTGTCGG
Found at i:2314760 original size:20 final size:22
Alignment explanation
Indices: 2314708--2314769 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
2314698 ATAACATGTA
2314708 AAAATATGATAAAACCGGTATC
1 AAAATATGATAAAACCGGTATC
*
2314730 AAAATATGATAAAACTGGTATC
1 AAAATATGATAAAACCGGTATC
2314752 -AAA-ATGATAAAACCGGTA
1 AAAATATGATAAAACCGGTA
2314770 AAGCGCTACC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.37
21 3 0.08
22 21 0.55
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.23
Consensus pattern (22 bp):
AAAATATGATAAAACCGGTATC
Found at i:2317019 original size:21 final size:21
Alignment explanation
Indices: 2316995--2317059 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2316985 AAGACAATCA
2316995 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2317016 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
2317037 AGAGTCAAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2317058 AG
1 AG
2317060 GCATAAAGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.43, C:0.11, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2317135 original size:33 final size:33
Alignment explanation
Indices: 2317093--2317156 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
2317083 AAATAGATGG
*
2317093 AGTGATGAAAGAAGTAGAGGTGTTGAGGGGTAA
1 AGTGATGAAAGAAGTAGAGGTGTTAAGGGGTAA
* *
2317126 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGT
1 AGTGATGAAAGAAGTAGAGGTGTTAAGGGGT
2317157 GATCTTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (33 bp):
AGTGATGAAAGAAGTAGAGGTGTTAAGGGGTAA
Found at i:2318937 original size:19 final size:19
Alignment explanation
Indices: 2318913--2318961 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2318903 AATGTAGGGT
*
2318913 TAATTTTTTATAAGATTTA
1 TAATTTTGTATAAGATTTA
2318932 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
2318951 TAATTTTGTAT
1 TAATTTTGTAT
2318962 GTGAGTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2318972 original size:18 final size:19
Alignment explanation
Indices: 2318913--2318985 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
2318903 AATGTAGGGT
* * *
2318913 TAATTTTTTATAAGATTTA
1 TAATTTTGTATGAGATGTA
* *
2318932 TAATTTTGTATAAGATTTA
1 TAATTTTGTATGAGATGTA
*
2318951 TAATTTTGTATGTGA-GTA
1 TAATTTTGTATGAGATGTA
*
2318969 TAATTATGTATGAGATG
1 TAATTTTGTATGAGATG
2318986 AGAAAAGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.32
19 32 0.68
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (19 bp):
TAATTTTGTATGAGATGTA
Found at i:2322333 original size:251 final size:249
Alignment explanation
Indices: 2321909--2322360 Score: 678
Period size: 251 Copynumber: 1.8 Consensus size: 249
2321899 TAACGACCCA
* *
2321909 AAAAACATCGAAACCCATAATTATATTGTAATGGTAATTTTTCAATGTAACCGGTATAAATATAC
1 AAAAACATCGAAACCCATAATTATAATGTAATGGTAATTTTTCAATATAACCGGTATAAATATAC
* * * *
2321974 CGGTTTTATGAAAAATATATCTACAACATTTATTGACACTTATTAGTATTGTGTCGATACTTTTG
66 CGGTTTTATGAAAAATAGATCTACAACATGTATCGACACTTATTAATATTGTGTCGATACTTTTG
2322039 TCCAGAATGGATGCCAAAAAGGGTGAACCTACAAAGTGTCGATACATTTTCATAG-AGTGTCGAT
131 TCCAGAATGGATGCCAAAAAGGGTGAACCTACAAAGTGTCGATACATTTTCA-AGCAGTGTCGAT
2322103 -CCAAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCGATCGC
195 CCCAAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCGATCGC
* *
2322157 AAAAACATCGAAATCCATAATTATAATGTAATAGGTAATTTTGT-AATATAACCGGTATACATAT
1 AAAAACATCGAAACCCATAATTATAATGTAAT-GGTAATTTT-TCAATATAACCGGTATAAATAT
* * * * * *
2322221 ACCGGTTTTATGAGAGAATAGGTCTATAATATGTATCGACACTTTTTAATATTGTGTCGATAATT
64 ACCGGTTTTATGA-AAAATAGATCTACAACATGTATCGACACTTATTAATATTGTGTCGAT-ACT
* *
2322286 TTTGTCCAGAATGGATGTCAAAAAGGGTGAACGC-ATAAAGTGTCGATACATTTTCAAGCAGTGT
127 TTTGTCCAGAATGGATGCCAAAAAGGGTGAAC-CTACAAAGTGTCGATACATTTTCAAGCAGTGT
2322350 CGATCCCAAAA
191 CGATCCCAAAA
2322361 ACATCGAAAC
Statistics
Matches: 181, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
248 30 0.17
249 40 0.22
250 41 0.23
251 63 0.35
252 7 0.04
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (249 bp):
AAAAACATCGAAACCCATAATTATAATGTAATGGTAATTTTTCAATATAACCGGTATAAATATAC
CGGTTTTATGAAAAATAGATCTACAACATGTATCGACACTTATTAATATTGTGTCGATACTTTTG
TCCAGAATGGATGCCAAAAAGGGTGAACCTACAAAGTGTCGATACATTTTCAAGCAGTGTCGATC
CCAAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCGATCGC
Found at i:2322423 original size:200 final size:199
Alignment explanation
Indices: 2322105--2322569 Score: 630
Period size: 200 Copynumber: 2.3 Consensus size: 199
2322095 GTGTCGATCC
* * * *
2322105 AAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCGATCGCAAAAACATCGAAA
1 AAAAGGG-TGAACGCATAAAGTGTCGATACATTTATCAAAAGTGTCGATCCCAAAAACATCGAAA
* ** *
2322170 TCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATACATATACCGGTTTTATGAG
65 TCCATAATTATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAG
* * *
2322235 AGAATAGGTCTATAATATGTATCGACACTT-TTTAATATTGTGTCGATAATTTTTGTCCAGAATG
130 AGAATAGGTCTATAACATGTAGCGACACTTGTTAAAT-TTGTGTCGATAATTTTT-TCCAGAATG
*
2322299 GATGTCA
193 GATGCCA
*
2322306 AAAAGGGTGAACGCATAAAGTGTCGATACATTT-TCAAGCAGTGTCGATCCCAAAAACATCGAAA
1 AAAAGGGTGAACGCATAAAGTGTCGATACATTTATCAA-AAGTGTCGATCCCAAAAACATCGAAA
* *
2322370 -CTCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCTGTTTTATGA
65 TC-CATAATTATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGA
* * *
2322434 GAGAATATGTCTATAACATGTAGCGACACTTGTTAAATTTGTGTCGATACTTTTTTCCAGAATGT
129 GAGAATAGGTCTATAACATGTAGCGACACTTGTTAAATTTGTGTCGATAATTTTTTCCAGAATGG
2322499 ATGCCA
194 ATGCCA
* * * * * * * *
2322505 AAAAGGATTAACGCACAAAGTGTCGATACATTTATTAAAAGTATCGATACCGAAAATATCGAAAT
1 AAAAGGGTGAACGCATAAAGTGTCGATACATTTATCAAAAGTGTCGATCCCAAAAACATCGAAAT
2322570 GAAATAGGTA
Statistics
Matches: 232, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
199 69 0.30
200 151 0.65
201 12 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (199 bp):
AAAAGGGTGAACGCATAAAGTGTCGATACATTTATCAAAAGTGTCGATCCCAAAAACATCGAAAT
CCATAATTATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGA
GAATAGGTCTATAACATGTAGCGACACTTGTTAAATTTGTGTCGATAATTTTTTCCAGAATGGAT
GCCA
Found at i:2325711 original size:199 final size:198
Alignment explanation
Indices: 2325180--2325885 Score: 739
Period size: 200 Copynumber: 3.5 Consensus size: 198
2325170 TAAATATGTT
* * *
2325180 TCGATACATTT-TATACAAGTATCGA-CCCAAAAAAACATCAAAACCAATAATTATAATGTAATA
1 TCGATACATTTATA-AAAAGTATCGATCCC--AAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
2325243 GGTAAATTAACAATCTAACCGATATAAATATACCG-GTTAATTAGAAAACAGGTC-AACATAATG
63 GGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGAGAAAATAGGTCTAA-ATAATG
* * * *
2325306 TATCGACACTTGTGTAATTTGTGTCGATAGTTATTGTCCAGGATGAAT-GCACAAACGAGGTGC-
127 TATCGACACTTGT-TAATTTGTGTCGATACTT-TTGTCCAGAATGAATACCA-AAAAG-GGTGCA
2325369 ACGCATAAAGTG
188 AC-CATAAAGTG
* * *
2325381 TCGATACATTTATTAAAAGTATCGATCCCAAAAATATCGAAACCGATAATTATAATGTATTAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
* * * * * *
2325446 AAATTTACAATGTAACCGATATAAAGATATCGGTTTTATGATAAAATAGGT-TAGCATAAAGTAT
66 AAATTTACAATGTAACCGATATAAATATACCGATTTTATGAGAAAATAGGTCTA-AATAATGTAT
*
2325510 CGACACTTGCTAAATTTGTGTCGATACTTTTGGTCCAGAATGAATACCAAAAAGGGTGCAACCAT
130 CGACACTTG-TTAATTTGTGTCGATACTTTT-GTCCAGAATGAATACCAAAAAGGGTGCAACCAT
2325575 AAAGTG
193 AAAGTG
* *
2325581 TCGATACATTTATAAAAAGTATCGATCCCGAAAACATCGAAACC-ATAAGTATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
* * * *
2325645 AAATTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATATGTCTAAATAATGTATC
66 AAATTTACAATGTAACCGATATAAATATACCGATTTTATGAGAAAATAGGTCTAAATAATGTATC
* * **
2325710 GACACGTTGTTAGTTTGTGTCGATACTTTTTTCCAGAATGAAATATGAATGCCCAACCA-GGTGC
131 GACAC-TTGTTAATTTGTGTCGATACTTTTGTCCAGAATG--A-AT--A---CCAAAAAGGGTGC
*
2325774 AAACATAAAGTG
187 AACCATAAAGTG
* ** * ** * *
2325786 TAGATACATTTA-AAATTGTATCGTTCTAAAAAACATCGTAACCGATAATAATAATGTAATAGGT
1 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
* * * *
2325850 AAATTTGCAATGTTACCGGTATAAATATATCGATTT
66 AAATTTACAATGTAACCGATATAAATATACCGATTT
2325886 ACTTCGAAAA
Statistics
Matches: 429, Mismatches: 56, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
198 9 0.02
199 94 0.22
200 123 0.29
201 88 0.21
202 7 0.02
203 1 0.00
204 24 0.06
205 78 0.18
206 5 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (198 bp):
TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
AAATTTACAATGTAACCGATATAAATATACCGATTTTATGAGAAAATAGGTCTAAATAATGTATC
GACACTTGTTAATTTGTGTCGATACTTTTGTCCAGAATGAATACCAAAAAGGGTGCAACCATAAA
GTG
Found at i:2326040 original size:64 final size:64
Alignment explanation
Indices: 2325917--2326042 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 64
2325907 AAGCGTTACT
*
2325917 TATTACATTATATAAGAACTACCTAATATGTTATTGTACTTAATAATATTTTCGATTAAATGCC
1 TATTACATTATATAAGAACTACCTAATATGTTATTGTACTTAATAATATTTCCGATTAAATGCC
** *
2325981 TATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCC-AGTTAAATG
1 TATTACATTATATAAGAACTACCTAATATGTTATTGTACTTAATAATATTTCCGA-TTAAATG
2326043 ATATAATATT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
63 1 0.02
64 56 0.98
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.42
Consensus pattern (64 bp):
TATTACATTATATAAGAACTACCTAATATGTTATTGTACTTAATAATATTTCCGATTAAATGCC
Found at i:2326315 original size:12 final size:12
Alignment explanation
Indices: 2326300--2326337 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
2326290 GTTATTTAAA
2326300 CGGGTATTGGGC
1 CGGGTATTGGGC
*
2326312 CGGGTATTGGGT
1 CGGGTATTGGGC
2326324 CGGGTATTGGGC
1 CGGGTATTGGGC
2326336 CG
1 CG
2326338 AGAATCGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.08, C:0.16, G:0.50, T:0.26
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:2326327 original size:24 final size:24
Alignment explanation
Indices: 2326300--2326354 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
2326290 GTTATTTAAA
* * *
2326300 CGGGTATTGGGCCGGGTATTGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
2326324 CGGGTATTGGGCCGAGAATCGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
2326348 CGGGTAT
1 CGGGTAT
2326355 ATATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.15, G:0.47, T:0.25
Consensus pattern (24 bp):
CGGGTATTGGGCCGAGAATCGGGT
Found at i:2326489 original size:13 final size:12
Alignment explanation
Indices: 2326458--2326494 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
2326448 TTTTAATATT
*
2326458 TATCGGGTCGGG
1 TATCGGGGCGGG
2326470 TATCGGGGCGGG
1 TATCGGGGCGGG
2326482 TAATCGGGGCGGG
1 T-ATCGGGGCGGG
2326495 GATTACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.11, C:0.16, G:0.54, T:0.19
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:2329368 original size:27 final size:27
Alignment explanation
Indices: 2329312--2329371 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
2329302 TCCCTAAATT
* **
2329312 TTTTTTGAATTTTTAGGAATTTTGGAG
1 TTTTTTGAAATTTTAGGAATTTAAGAG
2329339 TTTTTTGAAATTTTATGGAATTTAAG-G
1 TTTTTTGAAATTTTA-GGAATTTAAGAG
2329366 TTTTTT
1 TTTTTT
2329372 TTGGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.58
Consensus pattern (27 bp):
TTTTTTGAAATTTTAGGAATTTAAGAG
Found at i:2329370 original size:28 final size:29
Alignment explanation
Indices: 2329311--2329382 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
2329301 ATCCCTAAAT
* *
2329311 TTTTTTTGAATTTTTA-GGAATTT-TGGA
1 TTTTTTTGAAATTTTATGGAATTTAAGGA
* *
2329338 GTTTTTTGAAATTTTATGGAATTTAAGGT
1 TTTTTTTGAAATTTTATGGAATTTAAGGA
*
2329367 TTTTTTTGGAATTTTA
1 TTTTTTTGAAATTTTA
2329383 ATAATTTCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 14 0.38
28 7 0.19
29 16 0.43
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (29 bp):
TTTTTTTGAAATTTTATGGAATTTAAGGA
Found at i:2338074 original size:14 final size:14
Alignment explanation
Indices: 2338055--2338084 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2338045 AAAATATATA
2338055 ATATAAATTTTAAT
1 ATATAAATTTTAAT
*
2338069 ATATAATTTTTAAT
1 ATATAAATTTTAAT
2338083 AT
1 AT
2338085 TTCTATTTTT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATAAATTTTAAT
Found at i:2342260 original size:15 final size:15
Alignment explanation
Indices: 2342240--2342273 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2342230 ATCAAGATCA
2342240 ACATAATATATATAC
1 ACATAATATATATAC
2342255 ACATAATATATATAC
1 ACATAATATATATAC
2342270 ACAT
1 ACAT
2342274 TAAAAAAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (15 bp):
ACATAATATATATAC
Found at i:2343298 original size:12 final size:12
Alignment explanation
Indices: 2343266--2343296 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2343256 AAAAGTTCAT
2343266 AATGTAAATGGG
1 AATGTAAATGGG
2343278 AATGTAAATGGG
1 AATGTAAATGGG
2343290 AA-GTAAA
1 AATGTAAA
2343297 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (12 bp):
AATGTAAATGGG
Found at i:2345000 original size:50 final size:50
Alignment explanation
Indices: 2344943--2345044 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
2344933 ACAAACAAAA
2344943 GTAACAACAGAATATATCCAGCAATCATAGATCATGATAACATTTTGATG
1 GTAACAACAGAATATATCCAGCAATCATAGATCATGATAACATTTTGATG
2344993 GTAACAACAGAATATATCCAGCAATCATAGATCATGATAACATTTTGATG
1 GTAACAACAGAATATATCCAGCAATCATAGATCATGATAACATTTTGATG
2345043 GT
1 GT
2345045 TAATTGGTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (50 bp):
GTAACAACAGAATATATCCAGCAATCATAGATCATGATAACATTTTGATG
Found at i:2347534 original size:2 final size:2
Alignment explanation
Indices: 2347527--2347572 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2347517 TGAGAACAAG
2347527 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2347569 AT AT
1 AT AT
2347573 TTGTGTGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2358378 original size:15 final size:15
Alignment explanation
Indices: 2358358--2358391 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2358348 CTCGGTTTTC
*
2358358 ATAATATTATTAAAT
1 ATAATATCATTAAAT
*
2358373 ATAATATCATTAACT
1 ATAATATCATTAAAT
2358388 ATAA
1 ATAA
2358392 CTAAAATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATATCATTAAAT
Found at i:2362534 original size:34 final size:34
Alignment explanation
Indices: 2362488--2362554 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
2362478 TGAAGACACG
** * *
2362488 TTCTCTTAAATCTTGATGTTTCTTTCTGTATTCA
1 TTCTCTTAAATCTCAATGTATCTTTCTCTATTCA
*
2362522 TTCTCTTGAATCTCAATGTATCTTTCTCTATTC
1 TTCTCTTAAATCTCAATGTATCTTTCTCTATTC
2362555 GCCATGCTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.07, T:0.54
Consensus pattern (34 bp):
TTCTCTTAAATCTCAATGTATCTTTCTCTATTCA
Found at i:2368963 original size:2 final size:2
Alignment explanation
Indices: 2368956--2368999 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2368946 TCTAGGTTAA
2368956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2368998 AT
1 AT
2369000 TTGCACTTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2369275 original size:179 final size:177
Alignment explanation
Indices: 2369020--2369373 Score: 681
Period size: 179 Copynumber: 2.0 Consensus size: 177
2369010 CGTTAATTAT
2369020 TTGTTTAAATATCTATTAAAATTATATAGAGTCAATTCTGTTAACAGTATACTAAATTAATCATG
1 TTGTTTAAATATCTATTAAAATTATATAGAGTCAATTCTGTTAACAGTATACTAAATTAATCATG
2369085 ATGGGATGGATTATATTAAACTTAAATGAGACAAAACTGGGATCAATATTGTTTTAAAAATTAGT
66 ATGGGATGGATTATATTAAACTTAAATGAGACAAAACTGGGATCAATATTGTTTTAAAAATTAGT
2369150 TTTGTATATATTCTTAAATTATTCGATGACAAAAAATCAATAAAATA
131 TTTGTATATATTCTTAAATTATTCGATGACAAAAAATCAATAAAATA
*
2369197 TTGTTTAAATATCTATTAAAATTATTTATAGAGTCAATTCTGTTAACAGTATACTAAATTATTCA
1 TTGTTTAAATATCTATTAAAATTA--TATAGAGTCAATTCTGTTAACAGTATACTAAATTAATCA
2369262 TGATGGGATGGATTATATTAAACTTAAATGAGACAAAACTGGGATCAATATTGTTTTAAAAATTA
64 TGATGGGATGGATTATATTAAACTTAAATGAGACAAAACTGGGATCAATATTGTTTTAAAAATTA
2369327 GTTTTGTATATATTCTTAAATTATTCGATGACAAAAAATCAATAAAA
129 GTTTTGTATATATTCTTAAATTATTCGATGACAAAAAATCAATAAAA
2369374 AAATTTTCTA
Statistics
Matches: 174, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
177 24 0.14
179 150 0.86
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (177 bp):
TTGTTTAAATATCTATTAAAATTATATAGAGTCAATTCTGTTAACAGTATACTAAATTAATCATG
ATGGGATGGATTATATTAAACTTAAATGAGACAAAACTGGGATCAATATTGTTTTAAAAATTAGT
TTTGTATATATTCTTAAATTATTCGATGACAAAAAATCAATAAAATA
Found at i:2371466 original size:68 final size:68
Alignment explanation
Indices: 2371383--2371520 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
2371373 CTCAATAACC
2371383 AAATTTAAATATCTTAAAGCTTAACTCGATGGGCCTAGTTGAGCTCTTTACTTTTAGTTAGTATC
1 AAATTTAAATATCTTAAAGCTTAACTCGATGGGCCTAGTTGAGCTCTTTACTTTTAGTTAGTATC
2371448 GAA
66 GAA
2371451 AAATTTAAATATCTTAAAGCTTAACTCGATGGGCCTAGTTGAGCTCTTTACTTTTAGTTAGTATC
1 AAATTTAAATATCTTAAAGCTTAACTCGATGGGCCTAGTTGAGCTCTTTACTTTTAGTTAGTATC
2371516 GAA
66 GAA
2371519 AA
1 AA
2371521 TTTCAATTCA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (68 bp):
AAATTTAAATATCTTAAAGCTTAACTCGATGGGCCTAGTTGAGCTCTTTACTTTTAGTTAGTATC
GAA
Found at i:2375878 original size:16 final size:16
Alignment explanation
Indices: 2375857--2375887 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2375847 TGTAAGTAGA
2375857 TTGTAAATGTTTTGTG
1 TTGTAAATGTTTTGTG
2375873 TTGTAAATGTTTTGT
1 TTGTAAATGTTTTGT
2375888 AACTGACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (16 bp):
TTGTAAATGTTTTGTG
Found at i:2383066 original size:24 final size:23
Alignment explanation
Indices: 2383018--2383084 Score: 89
Period size: 24 Copynumber: 2.9 Consensus size: 23
2383008 TAAAAATATT
* *
2383018 TGTTCTTGTGACATATTTTTCTC
1 TGTTCTTGTGACACAATTTTCTC
2383041 TGTTCTTGTGACACACATTTTCTC
1 TGTTCTTGTGACACA-ATTTTCTC
* *
2383065 TGTTCTTGTGGCACGATTTT
1 TGTTCTTGTGACACAATTTT
2383085 ATGGTTTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.51
Consensus pattern (23 bp):
TGTTCTTGTGACACAATTTTCTC
Found at i:2383375 original size:24 final size:24
Alignment explanation
Indices: 2383325--2383392 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
2383315 AGACAACGAG
* * **
2383325 TTTCTCTGTTCTTGTGACATATTT
1 TTTCTCTGTTCTTGTGGCACACAT
*
2383349 TTTCTCTGCTCTTGTGGCACACAT
1 TTTCTCTGTTCTTGTGGCACACAT
* *
2383373 TTTCTTTATTCTTGTGGCAC
1 TTTCTCTGTTCTTGTGGCAC
2383393 GATGTTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.12, C:0.22, G:0.15, T:0.51
Consensus pattern (24 bp):
TTTCTCTGTTCTTGTGGCACACAT
Found at i:2383596 original size:318 final size:313
Alignment explanation
Indices: 2383018--2383647 Score: 868
Period size: 318 Copynumber: 2.0 Consensus size: 313
2383008 TAAAAATATT
* *
2383018 TGTTCTTGTGACATATTTTTCTCTGTTCTTGTGACACACATTTTCTCTGTTCTTGTGGCACGATT
1 TGTTCTTGTGACATATTTTTCTCTGCTCTTGTGACACACATTTTCTCTATTCTTGTGGCACGATT
* * * * *
2383083 TTATGGTTTTTGATAATTTTTTCGTATACCTTTGCGGTCGTTTTGGTTGTACAAAAATCATCACG
66 TTATGGTGTTTGATAATTTTTTCATATACCTTTGCGATCGTTTTGGTTGCACAAAAATAATCACG
* * * ** * *
2383148 ACATTTATTTTCTGATTGGTTTGTCGATGGTTACATATAGTCAAATCTCCTCTTTTGGTAAAAGG
131 ACATTTATTTTCTGATAGGTTTGTCAATGGTCACATATACCCAAATCCCCTCTTTTAGTAAAAGG
* * * * * * *
2383213 TTGTTTATCGATGTAATCATAATTGTGTAGCGAAGCAGCCTGCCAAATTGTTTGGTTCGCTCTCC
196 TTGTTTATCGATATAATCAGAATTGTGTAACGAAGAAGCCTGCAAAATTGTTTGCTTCACTCTCC
* *
2383278 ACTCCTTTATCACTTCGTAAAATATTTCATTCGACAAAGACAACGAGTTTCTC
261 ACTCCTTTATCACTTCGTAAAACATTTCATTCGACAAAGACAAAGAGTTTCTC
* *
2383331 TGTTCTTGTGACATATTTTTTCTCTGCTCTTGTGGCACACATTTTCTTTATTCTTGTGGCACGAT
1 TGTTCTTGTGACATA-TTTTTCTCTGCTCTTGTGACACACATTTTCTCTATTCTTGTGGCACGA-
*
2383396 GTTTTATGGTGTTTGAT-ATGTTTTTCATATACTTTTGCGATCGTTTTGGTTCTCGCACAAAAAT
64 -TTTTATGGTGTTTGATAAT-TTTTTCATATACCTTTGCGATCGTTTTGG-T-T-GCACAAAAAT
* ** *
2383460 AATCATGACATTTATTTTCT-ATAGGTTTGTCAATGGTCATGTGTACCCAAATCCCCTCTTTTAG
124 AATCACGACATTTATTTTCTGATAGGTTTGTCAATGGTCACATATACCCAAATCCCCTCTTTTAG
* *
2383524 TAAAAGGTTGTTTATTGATATAATCAGAATTGTGTAACGAAGAAGCTTGCAAAATTGTTTGCTTC
189 TAAAAGGTTGTTTATCGATATAATCAGAATTGTGTAACGAAGAAGCCTGCAAAATTGTTTGCTTC
* * *
2383589 ACTCTCCACTCCTTTATCACTTCGTAAAACGTTTCATTCGATATAGACAAAGAGTTTCT
254 ACTCTCCACTCCTTTATCACTTCGTAAAACATTTCATTCGACAAAGACAAAGAGTTTCT
2383648 ATGAAGGTTA
Statistics
Matches: 275, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
313 15 0.05
314 44 0.16
315 2 0.01
316 41 0.15
317 1 0.00
318 145 0.53
319 27 0.10
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (313 bp):
TGTTCTTGTGACATATTTTTCTCTGCTCTTGTGACACACATTTTCTCTATTCTTGTGGCACGATT
TTATGGTGTTTGATAATTTTTTCATATACCTTTGCGATCGTTTTGGTTGCACAAAAATAATCACG
ACATTTATTTTCTGATAGGTTTGTCAATGGTCACATATACCCAAATCCCCTCTTTTAGTAAAAGG
TTGTTTATCGATATAATCAGAATTGTGTAACGAAGAAGCCTGCAAAATTGTTTGCTTCACTCTCC
ACTCCTTTATCACTTCGTAAAACATTTCATTCGACAAAGACAAAGAGTTTCTC
Found at i:2385517 original size:76 final size:76
Alignment explanation
Indices: 2385426--2385578 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
2385416 GGTTAACCGT
2385426 AGAGGAAACCTGGAAAATTTGGCCGACAATCTAAATTTGCTTTCTTTTTTTTACTAATTTATTAA
1 AGAGGAAACCTGGAAAATTTGGCCGACAATCTAAATTTGCTTTCTTTTTTTTACTAATTTATTAA
2385491 TAAACCTAGAA
66 TAAACCTAGAA
2385502 AGAGGAAACCTGGAAAATTTGGCCGACAATCTAAATTTGCTTTCTTTTTTTTACTAATTTATTAA
1 AGAGGAAACCTGGAAAATTTGGCCGACAATCTAAATTTGCTTTCTTTTTTTTACTAATTTATTAA
2385567 TAAACCTAGAA
66 TAAACCTAGAA
2385578 A
1 A
2385579 ATCAATTCCC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (76 bp):
AGAGGAAACCTGGAAAATTTGGCCGACAATCTAAATTTGCTTTCTTTTTTTTACTAATTTATTAA
TAAACCTAGAA
Found at i:2386105 original size:42 final size:42
Alignment explanation
Indices: 2386053--2386133 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
2386043 TCTATAAAGC
2386053 AAAAGAAAGTCAATGACTTGCAAGATCTATAGAAGCATATAT
1 AAAAGAAAGTCAATGACTTGCAAGATCTATAGAAGCATATAT
* *
2386095 AAAATAAAGTCAATGACTTGCAAGATCTATAGAATCATA
1 AAAAGAAAGTCAATGACTTGCAAGATCTATAGAAGCATA
2386134 GTTTGCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (42 bp):
AAAAGAAAGTCAATGACTTGCAAGATCTATAGAAGCATATAT
Found at i:2388025 original size:67 final size:68
Alignment explanation
Indices: 2387938--2388074 Score: 267
Period size: 67 Copynumber: 2.0 Consensus size: 68
2387928 TTCTTTAACC
2387938 AAAAATACAGTTCTTCGTCTAAACCAAAAGAGTGAACTGCTAACGAGATACAACTCATTTGTTCA
1 AAAAATACAGTTCTTCGTCTAAACCAAAAGAGTGAACTGCTAACGAGATACAACTCATTTGTTCA
2388003 ATT
66 ATT
2388006 AAAAATACA-TTCTTCGTCTAAACCAAAAGAGTGAACTGCTAACGAGATACAACTCATTTGTTCA
1 AAAAATACAGTTCTTCGTCTAAACCAAAAGAGTGAACTGCTAACGAGATACAACTCATTTGTTCA
2388070 ATT
66 ATT
2388073 AA
1 AA
2388075 TAGGGATAGC
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
67 60 0.87
68 9 0.13
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (68 bp):
AAAAATACAGTTCTTCGTCTAAACCAAAAGAGTGAACTGCTAACGAGATACAACTCATTTGTTCA
ATT
Found at i:2392172 original size:33 final size:33
Alignment explanation
Indices: 2392134--2392200 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
2392124 AACATATATC
2392134 ATCAAATACAAATATTTCAGGGAAAAAAAATTA
1 ATCAAATACAAATATTTCAGGGAAAAAAAATTA
2392167 ATCAAATACAAATATTTCAGGGAAAAAAAATTA
1 ATCAAATACAAATATTTCAGGGAAAAAAAATTA
2392200 A
1 A
2392201 GAGTAGATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (33 bp):
ATCAAATACAAATATTTCAGGGAAAAAAAATTA
Found at i:2393492 original size:42 final size:42
Alignment explanation
Indices: 2393433--2393513 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
2393423 ACATGGAAAG
2393433 CTGAACATACCCATTTGGACATGCATATATATCCAACACTCA
1 CTGAACATACCCATTTGGACATGCATATATATCCAACACTCA
*
2393475 CTGAACATACCCATTTGGACATGCATCTATATCCAACAC
1 CTGAACATACCCATTTGGACATGCATATATATCCAACAC
2393514 ACACATGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.26
Consensus pattern (42 bp):
CTGAACATACCCATTTGGACATGCATATATATCCAACACTCA
Found at i:2393674 original size:12 final size:12
Alignment explanation
Indices: 2393657--2393684 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2393647 TATAATTTCA
2393657 ACTATGAACTTT
1 ACTATGAACTTT
2393669 ACTATGAACTTT
1 ACTATGAACTTT
2393681 ACTA
1 ACTA
2393685 CGAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (12 bp):
ACTATGAACTTT
Found at i:2393994 original size:127 final size:127
Alignment explanation
Indices: 2393810--2394063 Score: 508
Period size: 127 Copynumber: 2.0 Consensus size: 127
2393800 AAAATACGTG
2393810 CAAGTGTAAAGCTTTTCGTTGATCATCCTAAAATGGCCACCAGCCAACCTTGCTCTCACCTGCAA
1 CAAGTGTAAAGCTTTTCGTTGATCATCCTAAAATGGCCACCAGCCAACCTTGCTCTCACCTGCAA
2393875 ATTCAAATTAATCCAATTTCACATTCATTTTATAAAACATACAAAAGTACACATAAAAAGTA
66 ATTCAAATTAATCCAATTTCACATTCATTTTATAAAACATACAAAAGTACACATAAAAAGTA
2393937 CAAGTGTAAAGCTTTTCGTTGATCATCCTAAAATGGCCACCAGCCAACCTTGCTCTCACCTGCAA
1 CAAGTGTAAAGCTTTTCGTTGATCATCCTAAAATGGCCACCAGCCAACCTTGCTCTCACCTGCAA
2394002 ATTCAAATTAATCCAATTTCACATTCATTTTATAAAACATACAAAAGTACACATAAAAAGTA
66 ATTCAAATTAATCCAATTTCACATTCATTTTATAAAACATACAAAAGTACACATAAAAAGTA
2394064 ACCTTGTCAA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 127 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (127 bp):
CAAGTGTAAAGCTTTTCGTTGATCATCCTAAAATGGCCACCAGCCAACCTTGCTCTCACCTGCAA
ATTCAAATTAATCCAATTTCACATTCATTTTATAAAACATACAAAAGTACACATAAAAAGTA
Found at i:2394091 original size:3 final size:3
Alignment explanation
Indices: 2394085--2394137 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
2394075 AAGAAGAAGA
2394085 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
2394133 AGG AG
1 AGG AG
2394138 AAAAAGACTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:2394940 original size:20 final size:20
Alignment explanation
Indices: 2394915--2395147 Score: 192
Period size: 20 Copynumber: 11.6 Consensus size: 20
2394905 AAATGACCAA
*
2394915 CAAATTCGCAACGCGAAATT
1 CAAATTCGCAACGCGAAAGT
*
2394935 CAAATTTGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* *
2394955 CAAATTTGCAACGCG-AACT
1 CAAATTCGCAACGCGAAAGT
*
2394974 CCAATTTCGCAAC-C--AAGTTT
1 -CAAATTCGCAACGCGAAAG--T
**
2394994 CCAGTTTCGCAACGCGAATATGT
1 -CAAATTCGCAACGCGAA-A-GT
* *
2395017 -AAATT-GCAACACAAAAGT
1 CAAATTCGCAACGCGAAAGT
*
2395035 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
* * *
2395055 CAACTTCGCAACACAAAAGT
1 CAAATTCGCAACGCGAAAGT
*
2395075 CAAATTCGCAACAC-AGAAGT
1 CAAATTCGCAACGCGA-AAGT
* *
2395095 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGAAAGT
*
2395115 CAAATTCGCAACGCGAAATTT
1 CAAATTCGCAACGCGAAA-GT
2395136 CAAATTCGCAAC
1 CAAATTCGCAAC
2395148 ACTAATTTAA
Statistics
Matches: 178, Mismatches: 22, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
18 4 0.02
19 11 0.06
20 141 0.79
21 18 0.10
23 2 0.01
24 1 0.01
25 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:2394960 original size:40 final size:40
Alignment explanation
Indices: 2394915--2395149 Score: 244
Period size: 40 Copynumber: 5.8 Consensus size: 40
2394905 AAATGACCAA
* * *
2394915 CAAATTCGCAACGCGAAATTCAAATTTGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAATTCAAATTCGCAACACAAAAGT
* * * * ***
2394955 CAAATTTGCAACGCGAACTCCAATTTCGCAAC-CAAGTTT
1 CAAATTCGCAACGCGAAATTCAAATTCGCAACACAAAAGT
**
2394994 CCAGTTTCGCAACGCGAATATGT-AAATT-GCAACACAAAAGT
1 -CAAATTCGCAACGCGAA-AT-TCAAATTCGCAACACAAAAGT
* * *
2395035 CAAATTCGCAACGCGATAGTCAACTTCGCAACACAAAAGT
1 CAAATTCGCAACGCGAAATTCAAATTCGCAACACAAAAGT
* *
2395075 CAAATTCGCAACAC-AGAAGTCAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGA-AATTCAAATTCGCAACACAAAAGT
2395115 CAAATTCGCAACGCGAAATTTCAAATTCGCAACAC
1 CAAATTCGCAACGCGAAA-TTCAAATTCGCAACAC
2395150 TAATTTAATT
Statistics
Matches: 158, Mismatches: 28, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 9 0.06
40 123 0.78
41 25 0.16
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (40 bp):
CAAATTCGCAACGCGAAATTCAAATTCGCAACACAAAAGT
Found at i:2395342 original size:14 final size:15
Alignment explanation
Indices: 2395323--2395360 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2395313 TCCCCATCTC
2395323 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
2395337 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
2395353 TAATTTTT
1 TAATTTTT
2395361 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:2395976 original size:12 final size:12
Alignment explanation
Indices: 2395956--2395988 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2395946 CCACATTTCT
*
2395956 AATACCAAACAC
1 AATATCAAACAC
2395968 AATATCAAACAC
1 AATATCAAACAC
2395980 AATATCAAA
1 AATATCAAA
2395989 ACCCACAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.15
Consensus pattern (12 bp):
AATATCAAACAC
Found at i:2396165 original size:24 final size:24
Alignment explanation
Indices: 2396114--2396167 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2396104 GTATTCGAAA
*
2396114 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
2396138 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
2396162 TTTGAT
1 TTTGAT
2396168 GATGTGATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:2398455 original size:18 final size:18
Alignment explanation
Indices: 2398429--2398464 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2398419 AAGCAAGAGG
*
2398429 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
*
2398447 AAATTAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
2398465 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:2399126 original size:22 final size:22
Alignment explanation
Indices: 2399098--2399152 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2399088 CAATCTGTCT
2399098 CTTCCATGTGAGTACTTTATTC
1 CTTCCATGTGAGTACTTTATTC
2399120 CTTCCATGTGAGTACTTTATTC
1 CTTCCATGTGAGTACTTTATTC
**
2399142 CAACCATGTGA
1 CTTCCATGTGA
2399153 CAAGTATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (22 bp):
CTTCCATGTGAGTACTTTATTC
Found at i:2399363 original size:24 final size:24
Alignment explanation
Indices: 2399312--2399364 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2399302 TTTCATATGT
* * *
2399312 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
2399336 AATTTGAGTTTGAATTTTAATATA
1 AATTTGAGTTTGAATTTAAATATA
2399360 AATTT
1 AATTT
2399365 CGGTTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:2400474 original size:67 final size:66
Alignment explanation
Indices: 2400401--2400578 Score: 234
Period size: 67 Copynumber: 2.6 Consensus size: 66
2400391 AATTTAAAAC
2400401 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAAATAATTCTTATTTACACATCAAAT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAAATAATTCTTATTTACACATC-AAT
2400466 TA
65 TA
* * * *
2400468 AACAAATCAACTTTTACAAATTAATTAAACAAGC-AAAAAAATAATTTTTATTTTCTCATCAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAAATAATTCTTATTTACACATCAATT
2400532 A
66 A
*
2400533 AACAAATTAACTTTCAATGTA-AAATTCAATTAAACAAGCAAAAAAA
1 AACAAATCAAC-TT---T-TACAAA-TCAATTAAACAAGCAAAAAAA
2400579 GTTTACCCCA
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
65 15 0.15
66 25 0.26
67 33 0.34
69 4 0.04
70 15 0.15
71 6 0.06
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (66 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAAATAATTCTTATTTACACATCAATT
A
Found at i:2400697 original size:24 final size:24
Alignment explanation
Indices: 2400670--2400722 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
2400660 TTTGCTCAAA
2400670 CAACACTTTCTACACATCTAAAAC
1 CAACACTTTCTACACATCTAAAAC
2400694 CAACACTTTCTACACATCTAAAAC
1 CAACACTTTCTACACATCTAAAAC
2400718 CAACA
1 CAACA
2400723 AACATCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (24 bp):
CAACACTTTCTACACATCTAAAAC
Found at i:2401840 original size:16 final size:16
Alignment explanation
Indices: 2401819--2401850 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2401809 ATCTCCTACT
2401819 GAGGAATGGTACTGGC
1 GAGGAATGGTACTGGC
*
2401835 GAGGAATGGTATTGGC
1 GAGGAATGGTACTGGC
2401851 CGGTAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.09, G:0.44, T:0.22
Consensus pattern (16 bp):
GAGGAATGGTACTGGC
Found at i:2402009 original size:21 final size:21
Alignment explanation
Indices: 2401964--2402060 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
2401954 GCAAGCGGGA
* *
2401964 CCTCTTAAACGATGACA--GG
1 CCTCTTGAACGATGAGAGGGG
* *
2401983 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
2402004 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
**
2402025 CCTCTTGAACGAT-AGGAGACG
1 CCTCTTGAACGATGA-GAGGGG
*
2402046 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
2402061 TAGGTACATC
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
19 13 0.22
20 2 0.03
21 42 0.71
22 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:2402058 original size:42 final size:42
Alignment explanation
Indices: 2401981--2402060 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
2401971 AACGATGACA
* * ** *
2401981 GGCCTCTTGAACGGTGGGAGGGGCTTCTTCGATGATGAGAGG
1 GGCCTCTTGAACGATAGGAGACGCCTCTTCGATGATGAGAGG
2402023 GGCCTCTTGAACGATAGGAGACGCCTCTT-GAATGATGA
1 GGCCTCTTGAACGATAGGAGACGCCTCTTCG-ATGATGA
2402061 TAGGTACATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.03
42 31 0.97
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.24
Consensus pattern (42 bp):
GGCCTCTTGAACGATAGGAGACGCCTCTTCGATGATGAGAGG
Found at i:2404315 original size:20 final size:20
Alignment explanation
Indices: 2404276--2404315 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2404266 TGTGATTTTG
* * *
2404276 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
2404296 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
2404316 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:2404676 original size:22 final size:22
Alignment explanation
Indices: 2404651--2404701 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
2404641 GATGGAGATA
2404651 GACGGATTTTGCCGAAGATGGG
1 GACGGATTTTGCCGAAGATGGG
*
2404673 GACGGATTTTGTCGAAGATGGG
1 GACGGATTTTGCCGAAGATGGG
*
2404695 GGCGGAT
1 GACGGAT
2404702 GTCGCCATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.12, G:0.43, T:0.24
Consensus pattern (22 bp):
GACGGATTTTGCCGAAGATGGG
Found at i:2404980 original size:20 final size:20
Alignment explanation
Indices: 2404813--2404971 Score: 228
Period size: 20 Copynumber: 8.0 Consensus size: 20
2404803 ATATTGTGTT
2404813 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
* *
2404833 TCGTGTTGCAAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
*
2404853 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
* * *
2404873 TTGTGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
* *
2404893 TTGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
*
2404913 TCGCGTTGCAAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
2404933 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
*
2404953 TCGCGTTGTGAATTTGACT
1 TCGCGTTGCGAATTTGACT
2404972 TCTATGTTGC
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 126 1.00
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTA
Found at i:2404997 original size:40 final size:40
Alignment explanation
Indices: 2404817--2405048 Score: 215
Period size: 40 Copynumber: 5.8 Consensus size: 40
2404807 TGTGTTTCGC
* * *
2404817 GTTGCGAATTTGACTATCGTGTTGCAAATTTGACTATC-GC
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACT-TCTGT
* * * *
2404857 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
* *
2404897 GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTATC-GC
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACT-TCTGT
* *
2404937 GTTGCGAATTTGACTATCGCGTTGTGAATTTGACTTCTAT
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
* ** *
2404977 GTTGCG-ATTT-ACATATTCGCGTTGCGAAATTGGA-AACTGG
1 GTTGCGAATTTGAC-TA-TCGCGTTGCG-AATTTGACTTCTGT
* *
2405017 GTTGCGAAATTGGAGT-TCGCGTTGCGAATTTG
1 GTTGCG-AATTTGACTATCGCGTTGCGAATTTG
2405049 TTGGTCATTT
Statistics
Matches: 159, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 14 0.09
40 131 0.82
41 7 0.04
42 4 0.03
43 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (40 bp):
GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
Found at i:2404997 original size:60 final size:60
Alignment explanation
Indices: 2404812--2405004 Score: 232
Period size: 60 Copynumber: 3.2 Consensus size: 60
2404802 AATATTGTGT
*
2404812 TTCGCGTTGCGAATTTGACTATCGTGTTGCAAATTTGACTATCGCGTTGCGAATTTGACT-
1 TTCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTATCGCGTTGCG-ATTTGACTA
* * * * *
2404872 TTTGTGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCAAATTTGACTA
1 TTCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTATCGCGTTGC-GATTTGACTA
* * **
2404933 -TCGCGTTGCGAATTTGACTATCGCGTTGTGAATTTGACT-TCTATGTTGCGATTT-ACATA
1 TTCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTATC-GCGTTGCGATTTGAC-TA
2404992 TTCGCGTTGCGAA
1 TTCGCGTTGCGAA
2405005 ATTGGAAACT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
58 2 0.02
59 8 0.07
60 103 0.91
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (60 bp):
TTCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTATCGCGTTGCGATTTGACTA
Found at i:2405040 original size:20 final size:19
Alignment explanation
Indices: 2404991--2405044 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2404981 CGATTTACAT
2404991 ATTCGCGTTGCGAAATTGG
1 ATTCGCGTTGCGAAATTGG
** *
2405010 AAACTGGGTTGCGAAATTGG
1 ATTC-GCGTTGCGAAATTGG
2405030 AGTTCGCGTTGCGAA
1 A-TTCGCGTTGCGAA
2405045 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (19 bp):
ATTCGCGTTGCGAAATTGG
Found at i:2407297 original size:31 final size:31
Alignment explanation
Indices: 2407259--2407317 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
2407249 CGGTGAATTT
2407259 AATATGTCATTCTCACTAGGAACTCCCATTC
1 AATATGTCATTCTCACTAGGAACTCCCATTC
*
2407290 AATATGTCATTCTCATTAGGAACTCCCA
1 AATATGTCATTCTCACTAGGAACTCCCA
2407318 AACTCTTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (31 bp):
AATATGTCATTCTCACTAGGAACTCCCATTC
Done.