Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 116 of 311
Found at i:38634952 original size:93 final size:93
Alignment explanation
Indices: 38634840--38635011 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38634830 CGCCCATAAG
* *
38634840 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38634905 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
38634933 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38634998 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
38635012 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:38635008 original size:46 final size:46
Alignment explanation
Indices: 38634833--38635008 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38634823 TGTAACCCGC
* * *
38634833 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
38634879 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
38634929 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38634972 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38635009 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38644283 original size:16 final size:17
Alignment explanation
Indices: 38644251--38644285 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38644241 TAATTCATTT
*
38644251 TTCATGTTTTCAATTAA
1 TTCATATTTTCAATTAA
38644268 TTCATATTTT-AATTAA
1 TTCATATTTTCAATTAA
38644284 TT
1 TT
38644286 AACTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (17 bp):
TTCATATTTTCAATTAA
Found at i:38647516 original size:14 final size:14
Alignment explanation
Indices: 38647497--38647538 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
38647487 TAATATAATA
38647497 TAATAAACAA-AAAG
1 TAATAAA-AAGAAAG
38647511 TAATAAAAAGAAAG
1 TAATAAAAAGAAAG
38647525 TAA-AAATAAGAAAG
1 TAATAAA-AAGAAAG
38647539 AGAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (14 bp):
TAATAAAAAGAAAG
Found at i:38647542 original size:20 final size:21
Alignment explanation
Indices: 38647505--38647543 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
38647495 TATAATAAAC
*
38647505 AAAAAGTAATAAAAAGAAAGT
1 AAAAAGTAAGAAAAAGAAAGT
*
38647526 AAAAA-TAAGAAAGAGAAA
1 AAAAAGTAAGAAAAAGAAA
38647544 AGAAATGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (21 bp):
AAAAAGTAAGAAAAAGAAAGT
Found at i:38647604 original size:24 final size:25
Alignment explanation
Indices: 38647558--38647606 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
38647548 ATGAGTATTG
**
38647558 GAAGAAACAAGAAAACAGGGGAAAA
1 GAAGAAACAAGAAAACAAAGGAAAA
*
38647583 GAAGAAA-AAGAAAAGAAAGGAAAA
1 GAAGAAACAAGAAAACAAAGGAAAA
38647607 TTAGGGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.69, C:0.04, G:0.27, T:0.00
Consensus pattern (25 bp):
GAAGAAACAAGAAAACAAAGGAAAA
Found at i:38650136 original size:7 final size:7
Alignment explanation
Indices: 38650124--38650162 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
38650114 ATGATGAATT
38650124 TGGAAAG
1 TGGAAAG
38650131 TGGAAAG
1 TGGAAAG
*
38650138 TAGAAAG
1 TGGAAAG
38650145 T-GAAAG
1 TGGAAAG
38650151 TGGAAAG
1 TGGAAAG
38650158 -GGAAA
1 TGGAAA
38650163 ATAAAAGCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 11 0.37
7 19 0.63
ACGTcount: A:0.49, C:0.00, G:0.38, T:0.13
Consensus pattern (7 bp):
TGGAAAG
Found at i:38653465 original size:37 final size:37
Alignment explanation
Indices: 38653405--38653476 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
38653395 TATTACGAAG
* * *
38653405 TCTTACCCGGACATAATCTCCACACGAAGTTATCGTC
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGTC
*
38653442 TCTTACCCGGACAAAATCCCCACACGTAGTCATCG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCG
38653477 GGTCTTTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGTC
Found at i:38653702 original size:22 final size:22
Alignment explanation
Indices: 38653674--38653748 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
38653664 TTTCACATTC
38653674 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
**** *** *
38653696 ATCACATATATCACTTTCACATT
1 ATCACATCGGCCA-TTAGGCCTT
38653719 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
38653742 ATCACAT
1 ATCACAT
38653749 ATATACACTT
Statistics
Matches: 35, Mismatches: 16, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
22 16 0.46
23 10 0.29
24 9 0.26
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.31
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:38653764 original size:93 final size:94
Alignment explanation
Indices: 38653601--38653915 Score: 548
Period size: 93 Copynumber: 3.4 Consensus size: 94
38653591 CCCTTCGGGA
* * * * * *
38653601 CTTA-CACATTTATACACTTTCACATCCATCACGTTGGCCACT-GGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38653664 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
38653693 CTTATCACATATAT-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38653757 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
38653786 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38653850 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
38653879 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
38653916 ATGCCTCTGT
Statistics
Matches: 213, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
92 28 0.13
93 164 0.77
94 21 0.10
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:38653776 original size:47 final size:47
Alignment explanation
Indices: 38653601--38653915 Score: 548
Period size: 47 Copynumber: 6.8 Consensus size: 47
38653591 CCCTTCGGGA
* * * * *
38653601 CTTA-CACATTTATACACTTTCACATCCATCACGTTGGCCACT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38653646 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38653693 CTTATCACATATAT-CACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38653739 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38653786 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38653832 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38653879 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
38653916 ATGCCTCTGT
Statistics
Matches: 259, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
45 3 0.01
46 125 0.48
47 131 0.51
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38658478 original size:18 final size:17
Alignment explanation
Indices: 38658436--38658479 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
38658426 GTCTAATGTC
38658436 CAGTAACAGTAAATTAT
1 CAGTAACAGTAAATTAT
* *
38658453 CCGTTAACAGTTAATTATT
1 CAG-TAACAGTAAATTA-T
38658472 CAGTAACA
1 CAGTAACA
38658480 ATCAGTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (17 bp):
CAGTAACAGTAAATTAT
Found at i:38660352 original size:22 final size:22
Alignment explanation
Indices: 38660327--38660372 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
38660317 TTTCGTTTCA
*
38660327 TTTTGTTTCTTTTCTATCTCTT
1 TTTTGTTTCATTTCTATCTCTT
* * *
38660349 TTTTTTTTCATTTCTTTTTCTT
1 TTTTGTTTCATTTCTATCTCTT
38660371 TT
1 TT
38660373 GTTTTATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTGTTTCATTTCTATCTCTT
Found at i:38660364 original size:16 final size:16
Alignment explanation
Indices: 38660322--38660372 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
38660312 CCCTGTTTCG
* *
38660322 TTTCATTT-TGTTTCT
1 TTTCATTTCTTTTTTT
*
38660337 TTTCTATCTCTTTTTTT
1 TTTC-ATTTCTTTTTTT
38660354 TTTCATTTCTTTTTCTT
1 TTTCATTTCTTTTT-TT
38660371 TT
1 TT
38660373 GTTTTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 12 0.41
17 13 0.45
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTCATTTCTTTTTTT
Found at i:38660387 original size:2 final size:2
Alignment explanation
Indices: 38660380--38660409 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
38660370 TTTGTTTTAT
38660380 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38660410 GTTAACTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38661939 original size:11 final size:11
Alignment explanation
Indices: 38661923--38661963 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
38661913 TTTAAGTAAA
*
38661923 TATTATTTTAT
1 TATTATATTAT
38661934 TATTATATTAT
1 TATTATATTAT
*
38661945 TGTTATATTA-
1 TATTATATTAT
38661955 TATTA-ATTA
1 TATTATATTA
38661964 AATAAAGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 4 0.15
10 4 0.15
11 19 0.70
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TATTATATTAT
Found at i:38661941 original size:16 final size:16
Alignment explanation
Indices: 38661922--38661959 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
38661912 ATTTAAGTAA
38661922 ATATTATT-TTATTATT
1 ATATTATTGTTA-TATT
38661938 ATATTATTGTTATATT
1 ATATTATTGTTATATT
38661954 ATATTA
1 ATATTA
38661960 ATTAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
ATATTATTGTTATATT
Found at i:38663534 original size:25 final size:25
Alignment explanation
Indices: 38663483--38663562 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
38663473 ACCTTAGCGC
* * **
38663483 GCTCTCTAATTATTAGCACGTCGGT
1 GCTCTCTGATTATTAGCACATTAGT
38663508 GCTCTCTGATTATTAGCACATTAGT
1 GCTCTCTGATTATTAGCACATTAGT
*
38663533 GCTCTCTG--TA-TAGCACTTTAGT
1 GCTCTCTGATTATTAGCACATTAGT
38663555 GCTCTCTG
1 GCTCTCTG
38663563 TTTAATAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 19 0.38
23 2 0.04
25 29 0.58
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATTAGT
Found at i:38663553 original size:22 final size:23
Alignment explanation
Indices: 38663506--38663563 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
38663496 TAGCACGTCG
38663506 GTGCTCTCTGATTATTAGCACATTA
1 GTGCTCTCTG--TATTAGCACATTA
*
38663531 GTGCTCTCTGTA-TAGCACTTTA
1 GTGCTCTCTGTATTAGCACATTA
38663553 GTGCTCTCTGT
1 GTGCTCTCTGT
38663564 TTAATAGTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 20 0.62
23 2 0.06
25 10 0.31
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (23 bp):
GTGCTCTCTGTATTAGCACATTA
Found at i:38663580 original size:10 final size:10
Alignment explanation
Indices: 38663565--38663590 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
38663555 GCTCTCTGTT
38663565 TAATAGTGCA
1 TAATAGTGCA
38663575 TAATAGTGCA
1 TAATAGTGCA
38663585 TAATAG
1 TAATAG
38663591 CTTTGGCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (10 bp):
TAATAGTGCA
Found at i:38664841 original size:7 final size:7
Alignment explanation
Indices: 38664829--38664869 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
38664819 ATGATGAATT
38664829 TGGAAAG
1 TGGAAAG
38664836 TGGAAAG
1 TGGAAAG
*
38664843 TAGAAAG
1 TGGAAAG
38664850 TGGAAAG
1 TGGAAAG
38664857 TGGAAAG
1 TGGAAAG
38664864 TGGAAA
1 TGGAAA
38664870 AAATAAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.39, T:0.15
Consensus pattern (7 bp):
TGGAAAG
Found at i:38678777 original size:10 final size:10
Alignment explanation
Indices: 38678762--38678792 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
38678752 GAGATGGAAT
38678762 TCAAATCGAA
1 TCAAATCGAA
38678772 TCAAATCGAA
1 TCAAATCGAA
38678782 TCAAATCGAA
1 TCAAATCGAA
38678792 T
1 T
38678793 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (10 bp):
TCAAATCGAA
Found at i:38681836 original size:95 final size:95
Alignment explanation
Indices: 38681571--38682058 Score: 649
Period size: 95 Copynumber: 5.2 Consensus size: 95
38681561 GTTAAATTAA
*
38681571 AAATTAAT-TAATA-TA-AGAGTACAACAACATAAATTAAACAAAAAAAGTATGTTAAACTACAT
1 AAATTAATATAATAGTACA-AGTACAACAACATAAATTAAACAAAAAAAGTATGTTAAACTACAG
* *
38681633 TTTAAACTTCAAAGTTAGTTAATTGAAGCCT
65 TTTAAATTTTAAAGTTAGTTAATTGAAGCCT
* * *
38681664 AAATTAATATAATAGTACAA-T-----AGCATAAATTAAACAAAAAAAAGTCTGTTAAGCTACAG
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAAC-AAAAAAAGTATGTTAAACTACAG
38681723 TTTAAATTTTAAAGTTAGTTAATTGAAGCCT
65 TTTAAATTTTAAAGTTAGTTAATTGAAGCCT
* *
38681754 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAGTATGTTAAAATATAGT
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAGTATGTTAAACTACAGT
*
38681819 TTAAATTTTAAAATTAGTTAATTGAAGCCT
66 TTAAATTTTAAAGTTAGTTAATTGAAGCCT
* *
38681849 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAAGTATGTTAAAATATAG
1 AAATTAATATAATAGTACAAGTACAACAACATAAATTAAAC-AAAAAAAGTATGTTAAACTACAG
38681914 TTTAAATTTTAAAGTTAGTTAATTGAAGCCT
65 TTTAAATTTTAAAGTTAGTTAATTGAAGCCT
* * * ** * * * *
38681945 AAATTAATATAATAGTATAA-TAGC-ATAA-ATTAAGCAAAAAAAGAAAAGTCTGCTAAACCACA
1 AAATTAATATAATAGTACAAGTA-CAACAACATAAATTAAACAAA-AAAAGTATGTTAAACTACA
* *
38682007 GTTTAAACTTTAAAGTTAGTTAATTGAAGCAT
64 GTTTAAATTTTAAAGTTAGTTAATTGAAGCCT
38682039 AAATTAATATAATAGTACAA
1 AAATTAATATAATAGTACAA
38682059 CAGCATAAAT
Statistics
Matches: 355, Mismatches: 27, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
89 13 0.04
90 69 0.19
91 1 0.00
93 11 0.03
94 76 0.21
95 98 0.28
96 87 0.25
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.31
Consensus pattern (95 bp):
AAATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAGTATGTTAAACTACAGT
TTAAATTTTAAAGTTAGTTAATTGAAGCCT
Found at i:38681974 original size:185 final size:179
Alignment explanation
Indices: 38681576--38682071 Score: 641
Period size: 185 Copynumber: 2.7 Consensus size: 179
38681566 ATTAAAAATT
* * *
38681576 AATTAATATAAGAGTACAACAACATAAATTAAACAAAAAAAGTATGTTAAACTACATTTTAAACT
1 AATTAATATAATAGTATAACAACATAAATTAAACAAAAAAAGTATGTTAAACTACAGTTTAAACT
* *
38681641 TCAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAA
66 TTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAACATAAATTAAACAAAAAAA
* **
38681706 AGTCTGTTAAGCTACAGTTTAAATTTTAAAGTTAGTTAATTGAAGCCTA
131 AGTATGTTAAAATACAGTTTAAATTTTAAAGTTAGTTAATTGAAGCCTA
* *
38681755 AATTAATATAATAGTACAAGTACAACAACATAAATTAAACAAAAAAAGTATGTTAAAATATAGTT
1 AATTAATATAATAGT---A-T--AACAACATAAATTAAACAAAAAAAGTATGTTAAACTACAGTT
* *
38681820 TAAATTTTAAAATTAGTTAATTGAAGCCTAAATTAATATAATAGTACAAGTACAACAACATAAAT
60 TAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAA-T-----AACATAAAT
*
38681885 TAAACAAAAAAAAGTATGTTAAAATATAGTTTAAATTTTAAAGTTAGTTAATTGAAGCCTA
119 TAAACAAAAAAAAGTATGTTAAAATACAGTTTAAATTTTAAAGTTAGTTAATTGAAGCCTA
* * * * * *
38681946 AATTAATATAATAGTATAATAGCATAAATTAAGCAAAAAAAGAAAAGTCTGCTAAACCACAGTTT
1 AATTAATATAATAGTATAACAACATAAATT----AAACAAA-AAAAGTATGTTAAACTACAGTTT
* * *
38682011 AAACTTTAAAGTTAGTTAATTGAAGCATAAATTAATATAATAGTACAACAGCATAAATTAA
61 AAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAACATAAATTAA
38682072 TTAATTGAAG
Statistics
Matches: 274, Mismatches: 26, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
179 14 0.05
182 1 0.00
184 11 0.04
185 96 0.35
186 1 0.00
187 1 0.00
188 1 0.00
189 6 0.02
190 63 0.23
191 80 0.29
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (179 bp):
AATTAATATAATAGTATAACAACATAAATTAAACAAAAAAAGTATGTTAAACTACAGTTTAAACT
TTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAACATAAATTAAACAAAAAAA
AGTATGTTAAAATACAGTTTAAATTTTAAAGTTAGTTAATTGAAGCCTA
Found at i:38682411 original size:17 final size:17
Alignment explanation
Indices: 38682389--38682440 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
38682379 TTTTCTCTAT
*
38682389 TAATATTGCATTATTAC
1 TAATATTACATTATTAC
*
38682406 TAATATTATATTATTAC
1 TAATATTACATTATTAC
38682423 TAATATTACATTATTAC
1 TAATATTACATTATTAC
38682440 T
1 T
38682441 TTGGGAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:38686384 original size:39 final size:40
Alignment explanation
Indices: 38686279--38686461 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
38686269 TTGAATGCTG
* * * *
38686279 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
38686318 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
38686359 TCCGGGTTAAGT-CCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
38686398 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
38686438 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38686462 GAATGAGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.30
40 75 0.61
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:38686474 original size:79 final size:79
Alignment explanation
Indices: 38686313--38686498 Score: 191
Period size: 79 Copynumber: 2.4 Consensus size: 79
38686303 GTGCTAAGTG
* * * * *
38686313 ACTATATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCGAAG
1 ACTATAACCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAG
* **
38686377 GCCTTTGTGCGAGAT
65 GCCATTGAACGAGAT
* *
38686392 ACTA-ATTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCCGA
1 ACTATA-ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATT-AAATCCGGGTTAAGT-CCGA
* *
38686455 AGG-CATTGAATGAGTT
63 AGGCCATTGAACGAGAT
*
38686471 ACTATAACCGGGCTATGTCCCGAAGGCA
1 ACTATAACCGGGCTAAGTCCCGAAGGCA
38686499 CTTGAACGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
78 4 0.04
79 77 0.87
80 8 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
ACTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGG
CCATTGAACGAGAT
Found at i:38686482 original size:39 final size:39
Alignment explanation
Indices: 38686359--38686508 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
38686349 AGTTATTAAT
* ** * *
38686359 TCCGGGTTAAGT-CCGAAGGCCTTTGTGCGAGATACT-AAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
38686398 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* *
38686438 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
38686478 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
38686509 GAGCTAATCC
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
39 42 0.45
40 52 0.55
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:38694242 original size:39 final size:38
Alignment explanation
Indices: 38694123--38694306 Score: 165
Period size: 40 Copynumber: 4.7 Consensus size: 38
38694113 TTGAATGCTG
* * * *
38694123 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGT-ATTAAT
** *
38694162 ATCCGGAATAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAG-TATTAAT
* * *
38694203 TCCGGGTTAAGTCTCGAAGGCCTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAG-TATTAAT
* *
38694242 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTATT-AAT
38694282 TCCGGGTTAAGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTG
38694307 AATGAGTTAA
Statistics
Matches: 119, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
39 41 0.34
40 68 0.57
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTATTAAT
Found at i:38694326 original size:39 final size:39
Alignment explanation
Indices: 38694191--38694352 Score: 139
Period size: 39 Copynumber: 4.1 Consensus size: 39
38694181 GGTATTTGTG
* * * * **
38694191 CGAGTTATTAATTCCGGGTTAAGTCTCGAAGGCCTTGTG
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * **
38694230 CGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT-GAA
*
38694270 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * * *
38694309 TGAGTTAATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTT-ATAAAATCCGGGTTAAGTCCCGAAGGCA-TTGAA
38694349 CGAG
1 CGAG
38694353 GAGCTAAATC
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
39 57 0.55
40 47 0.45
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
Found at i:38694326 original size:79 final size:79
Alignment explanation
Indices: 38694176--38694342 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
38694166 GGAATAAGAT
* * * * * ** *
38694176 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTCTCGAAGGCCTTGTGCGAGATACTAA
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGAACGAGATAATAA
* *
38694241 TTCCGGGTTAAGTC
66 TACCGGGCTAAGTC
* *
38694255 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTAAT-
1 CCGAAGGCATTCGTGCGAGTTATT-AAATCCGGGTTAAGTCCCGAAGGCATTGAACGAGATAATA
*
38694318 ATAACCGGGCTATGTC
65 AT-ACCGGGCTAAGTC
38694334 CCGAAGGCA
1 CCGAAGGCA
38694343 CTTGAACGAG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
78 4 0.05
79 69 0.95
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGAACGAGATAATAA
TACCGGGCTAAGTC
Found at i:38704366 original size:17 final size:18
Alignment explanation
Indices: 38704344--38704377 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38704334 ATATAGTTTA
38704344 TATTCG-GTTATTTGAAT
1 TATTCGAGTTATTTGAAT
*
38704361 TATTCGAGTTGTTTGAA
1 TATTCGAGTTATTTGAA
38704378 CTCGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.50
Consensus pattern (18 bp):
TATTCGAGTTATTTGAAT
Found at i:38705633 original size:19 final size:18
Alignment explanation
Indices: 38705587--38705634 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
38705577 AAAAATTATT
38705587 AAAAATTCTAAAAAATAGA
1 AAAAATT-TAAAAAATAGA
38705606 AAAATATTTAAAAGAATA-A
1 AAAA-ATTTAAAA-AATAGA
38705625 AATAAATTTA
1 AA-AAATTTA
38705635 TTCAACGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAAATTTAAAAAATAGA
Found at i:38705884 original size:26 final size:26
Alignment explanation
Indices: 38705837--38705894 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
38705827 AAATTATATA
* *
38705837 AAATTTTAAAAATACATAAAAATGCT
1 AAATTTTAAAAAGACATAAAAATGAT
* *
38705863 AAATTTTAAAAAGA-ATCTAAAATTAT
1 AAATTTTAAAAAGACAT-AAAAATGAT
38705889 AAATTT
1 AAATTT
38705895 AGTTATATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (26 bp):
AAATTTTAAAAAGACATAAAAATGAT
Found at i:38705967 original size:14 final size:14
Alignment explanation
Indices: 38705945--38705983 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
38705935 TTTTTGTAAC
38705945 TTAATTCAAATAAA
1 TTAATTCAAATAAA
* * *
38705959 TTTATTCAATTTAA
1 TTAATTCAAATAAA
38705973 TTAATTCAAAT
1 TTAATTCAAAT
38705984 TCCCTTTCAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATTCAAATAAA
Found at i:38707387 original size:24 final size:23
Alignment explanation
Indices: 38707342--38707387 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
38707332 AAATTAGCTT
* *
38707342 TTTTTTAATTTGGTTTTTAATTG
1 TTTTTTAATTTAGTTTTAAATTG
*
38707365 TTTTTTACTTTAGTCTTTAAATT
1 TTTTTTAATTTAGT-TTTAAATT
38707388 TAGAAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (23 bp):
TTTTTTAATTTAGTTTTAAATTG
Found at i:38719598 original size:30 final size:30
Alignment explanation
Indices: 38719564--38719623 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
38719554 TGGAATGTTA
38719564 TTAATTTTTGATGTACCTTACACTGCTTTC
1 TTAATTTTTGATGTACCTTACACTGCTTTC
*
38719594 TTAATTTTTGATGTACCTTACAGTGCTTTC
1 TTAATTTTTGATGTACCTTACACTGCTTTC
38719624 ATAGACATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (30 bp):
TTAATTTTTGATGTACCTTACACTGCTTTC
Found at i:38722995 original size:46 final size:45
Alignment explanation
Indices: 38722847--38723110 Score: 192
Period size: 47 Copynumber: 5.7 Consensus size: 45
38722837 TGTGTGAGCT
* *** * *
38722847 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACCTTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CTCGAGA-CATAGCC
* * * ** * * **
38722893 AGTGTAATACCATGTATGGGACATGGTATCAACATTGAGACGAGAGTT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TCGAGAC-ATAGCC
38722941 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CTCGAGACAT-AGCC
* * *
38722987 AGTGTAAGACATGTCTGGGACAT-ACATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCT-CGAGA-CATAGCC
** * *
38723033 AGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCTCGAGACAT-AGCC
*
38723080 AGTGTAAGGCCATGTCTGGGACATGGCATCG
1 AGTGTAA-GACATGTCTGGGACATGGCATCG
38723111 ACACCTTACC
Statistics
Matches: 173, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
45 3 0.02
46 68 0.39
47 78 0.45
48 24 0.14
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCTCGAGACATAGCC
Found at i:38723072 original size:47 final size:48
Alignment explanation
Indices: 38722889--38723109 Score: 197
Period size: 47 Copynumber: 4.7 Consensus size: 48
38722879 ACCTTATGAG
* * * * * *
38722889 AGCCAGTGTAATACCATGTATGGGACATGGTATCAACATTGAGACGA-G
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TCGAGATGATA
** ** *
38722937 AGTTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA-CATA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AACTCGAGATGATA
* **
38722983 AGCCAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACT-CGAGATGATA
* * *
38723029 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGAT-ATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGATGATA
*
38723076 AGCCAGTGTAAGGCCATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
38723110 GACACCTTAC
Statistics
Matches: 144, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
45 4 0.03
46 57 0.40
47 67 0.47
48 16 0.11
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGATGATA
Found at i:38723099 original size:140 final size:141
Alignment explanation
Indices: 38722847--38723110 Score: 363
Period size: 140 Copynumber: 1.9 Consensus size: 141
38722837 TGTGTGAGCT
* ** *
38722847 AGTGTAAGACATGTCTGGGACATGCATCGGCCACCTTATGAGAGCCAGTGTAATACCATGTATGG
1 AGTGTAAGACATGTCTGGGACATACATCGGCCACCAGATGAGAGCCAGTGTAAGACCATGTATGG
* **
38722912 GACATGGTATCAACATTGAGACGAGAGTTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
38722976 AGACATAAGCC
131 AGACATAAGCC
* * * * *
38722987 AGTGTAAGACATGTCTGGGACATACATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATACATCGGCCACCAGATGAGAGCCAGTGTAAGACCATGTATGG
* *
38723052 GACATGGCATCAAC-TTGAGA-TATGAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCG
66 GACATGGCATCAACATTGAGACGA-GAGCCAGTGTAA-GACATGTCTGGGACATGGCATCG
38723111 ACACCTTACC
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
138 1 0.01
139 16 0.15
140 84 0.79
141 6 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCCACCAGATGAGAGCCAGTGTAAGACCATGTATGG
GACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
AGACATAAGCC
Found at i:38742401 original size:21 final size:23
Alignment explanation
Indices: 38742377--38742424 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
38742367 ATTTTATACA
*
38742377 ATTTTTATTA-TTAAATA-ATAT
1 ATTTTTATAATTTAAATATATAT
*
38742398 ATTTTTATAATTTTAATATATAT
1 ATTTTTATAATTTAAATATATAT
38742421 ATTT
1 ATTT
38742425 GTGATGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 6 0.26
23 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTTATAATTTAAATATATAT
Found at i:38743589 original size:11 final size:11
Alignment explanation
Indices: 38743570--38743608 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
38743560 TCGTCCAACA
*
38743570 TCTTATTCTTT
1 TCTTTTTCTTT
38743581 TCTTTTTCTTT
1 TCTTTTTCTTT
*
38743592 TC-CTTTCTTT
1 TCTTTTTCTTT
38743602 TCTTTTT
1 TCTTTTT
38743609 GATTTGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:38746021 original size:3 final size:3
Alignment explanation
Indices: 38746013--38746049 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
38746003 ATCTACTTAT
*
38746013 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
38746050 CATTTTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:38746095 original size:12 final size:12
Alignment explanation
Indices: 38745995--38746095 Score: 55
Period size: 12 Copynumber: 7.9 Consensus size: 12
38745985 TGTATATGTG
38745995 TTTTATTTATCTA
1 TTTTATTTAT-TA
*
38746008 -CTTATTTATTA
1 TTTTATTTATTA
38746019 TTATTACTATTATTA
1 TT-TTA-T-TTATTA
38746034 TTATTATTATTATTA
1 TT-TTA-T-TTATTA
* *
38746049 TCATTT-TTAATTG
1 T--TTTATTTATTA
*
38746062 TTTTATTTAATA
1 TTTTATTTATTA
*
38746074 -TTTCTTTATTA
1 TTTTATTTATTA
38746085 TTTTATTTATT
1 TTTTATTTATT
38746096 TGATTATTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
11 14 0.20
12 21 0.30
13 8 0.12
14 2 0.03
15 21 0.30
16 2 0.03
17 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:38746193 original size:15 final size:14
Alignment explanation
Indices: 38746171--38746230 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 14
38746161 TTGTTTTTTA
38746171 TTTCTTTTTATTAT
1 TTTCTTTTTATTAT
38746185 TTATCTTTTTTATTAT
1 TT-TC-TTTTTATTAT
*
38746201 TTTGTCTTTTATTAT
1 TTTCT-TTTTATTAT
* *
38746216 TGTTATTTATATTAT
1 T-TTCTTTTTATTAT
38746231 CGCATTCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 3 0.08
15 21 0.54
16 15 0.38
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTCTTTTTATTAT
Found at i:38746196 original size:16 final size:15
Alignment explanation
Indices: 38746171--38746216 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
38746161 TTGTTTTTTA
38746171 TTTC-TTTTTATTAT
1 TTTCTTTTTTATTAT
38746185 TTATCTTTTTTATTAT
1 TT-TCTTTTTTATTAT
* *
38746201 TTTGTCTTTTATTAT
1 TTTCTTTTTTATTAT
38746216 T
1 T
38746217 GTTATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 14 0.50
16 12 0.43
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTCTTTTTTATTAT
Found at i:38747135 original size:20 final size:23
Alignment explanation
Indices: 38747106--38747146 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
38747096 AATTTACGAT
38747106 TCTTTCGTTGC-AT-TTCATCTA
1 TCTTTCGTTGCGATCTTCATCTA
38747127 TCTTT-GTTGCGATCTTCATC
1 TCTTTCGTTGCGATCTTCATC
38747147 ATTTTGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.51
Consensus pattern (23 bp):
TCTTTCGTTGCGATCTTCATCTA
Found at i:38750113 original size:40 final size:40
Alignment explanation
Indices: 38749937--38750159 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
38749927 TCCTCGTTCA
* * * * *
38749937 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38749976 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
38750016 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38750056 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
38750096 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38750136 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38750160 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38752756 original size:12 final size:11
Alignment explanation
Indices: 38752741--38752784 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
38752731 ATTGGTCATT
38752741 GAGGGATTGTAG
1 GAGGGATTG-AG
38752753 GAGGGAGTTGAG
1 GAGGGA-TTGAG
*
38752765 GAGAGATATGAG
1 GAGGGAT-TGAG
38752777 GAGGGATT
1 GAGGGATT
38752785 TTAAGAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 23 0.82
13 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (11 bp):
GAGGGATTGAG
Found at i:38754178 original size:27 final size:27
Alignment explanation
Indices: 38754116--38754180 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
38754106 ACCTTTTTGC
* *
38754116 GATAAAATAATGATTTTGCCCTTATAT
1 GATAAAATGACGATTTTGCCCTTATAT
* *
38754143 GATAAAATGACGATTTTTCCCTTATGT
1 GATAAAATGACGATTTTGCCCTTATAT
38754170 GATAAAATGAC
1 GATAAAATGAC
38754181 CGAAATGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (27 bp):
GATAAAATGACGATTTTGCCCTTATAT
Found at i:38754191 original size:27 final size:27
Alignment explanation
Indices: 38754134--38754271 Score: 75
Period size: 27 Copynumber: 5.1 Consensus size: 27
38754124 AATGATTTTG
* ** *
38754134 CCCTTATATGATAAAATGA-CGATTTTT
1 CCCTTATGTGATAAAATGACCGA-AATA
*
38754161 CCCTTATGTGATAAAATGACCGAAATG
1 CCCTTATGTGATAAAATGACCGAAATA
* * ***
38754188 CCCTCATAG-GGTAAAATGATTAAAATA
1 CCCTTAT-GTGATAAAATGACCGAAATA
* * * *
38754215 CCCCTATATGGTAGAATGACCGAAATA
1 CCCTTATGTGATAAAATGACCGAAATA
* * *
38754242 CCCCTATAG-GATAAAATGACTGTAATA
1 CCCTTAT-GTGATAAAATGACCGAAATA
38754269 CCC
1 CCC
38754272 CGGTAAGGTA
Statistics
Matches: 85, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
27 81 0.95
28 4 0.05
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACCGAAATA
Found at i:38754272 original size:27 final size:26
Alignment explanation
Indices: 38754172--38754288 Score: 103
Period size: 27 Copynumber: 4.3 Consensus size: 26
38754162 CCTTATGTGA
*
38754172 TAAAATGACCGAAAT-GCCCTCATAGGG
1 TAAAATGACCGAAATACCCCT-ATA-GG
***
38754199 TAAAATGATTAAAATACCCCTATATGG
1 TAAAATGACCGAAATACCCCTATA-GG
*
38754226 TAGAATGACCGAAATACCCCTATAGG
1 TAAAATGACCGAAATACCCCTATAGG
* *
38754252 ATAAAATGACTGTAATACCCCGGTA-AGG
1 -TAAAATGACCGAAATACCCC--TATAGG
38754280 TAAAATGAC
1 TAAAATGAC
38754289 AAATTTGTTC
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
26 2 0.03
27 63 0.85
28 7 0.09
29 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCCTATAGG
Found at i:38754287 original size:54 final size:54
Alignment explanation
Indices: 38754172--38754288 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 54
38754162 CCTTATGTGA
* * * * *
38754172 TAAAATGACCGAAATGCCCTCATAGGGTAAAATGATTAAAATACCCCTATATGG
1 TAAAATGACCGAAATCCCCTCATAGGATAAAATGACTAAAATACCCCGATAAGG
* ** *
38754226 TAGAATGACCGAAATACCCCT-ATAGGATAAAATGACTGTAATACCCCGGTAAGG
1 TAAAATGACCGAAAT-CCCCTCATAGGATAAAATGACTAAAATACCCCGATAAGG
38754280 TAAAATGAC
1 TAAAATGAC
38754289 AAATTTGTTC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 48 0.92
55 4 0.08
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (54 bp):
TAAAATGACCGAAATCCCCTCATAGGATAAAATGACTAAAATACCCCGATAAGG
Found at i:38754366 original size:23 final size:23
Alignment explanation
Indices: 38754323--38754368 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
38754313 CTGTATTTGA
38754323 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
38754346 GCAT-CCATGTATGATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
38754369 ACATTACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
23 11 0.52
24 4 0.19
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:38755602 original size:30 final size:28
Alignment explanation
Indices: 38755548--38755603 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
38755538 ACACGGGCTA
*
38755548 GGACACGGGCATGTCATGGCCGTGTGAG
1 GGACACGGGCATGACATGGCCGTGTGAG
*
38755576 GGACACGGGCCATTGACATGGGCGTGTG
1 GGACACGGG-CA-TGACATGGCCGTGTG
38755604 TCTGGCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 2 0.08
30 13 0.54
ACGTcount: A:0.18, C:0.21, G:0.43, T:0.18
Consensus pattern (28 bp):
GGACACGGGCATGACATGGCCGTGTGAG
Found at i:38759289 original size:15 final size:16
Alignment explanation
Indices: 38759264--38759293 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38759254 AGATTTAGTT
38759264 ATTATATTTTAATTTA
1 ATTATATTTTAATTTA
38759280 ATTA-ATTTTAATTT
1 ATTATATTTTAATTT
38759294 CTGTTATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATATTTTAATTTA
Found at i:38762500 original size:43 final size:43
Alignment explanation
Indices: 38762453--38762656 Score: 216
Period size: 43 Copynumber: 4.7 Consensus size: 43
38762443 TTTCCCTAGG
* * *
38762453 TTTATCTAATGATGCACTATTTGTGCCAATATGATTGTTTCAA
1 TTTATCTGATGATGCACTATTTGTGCCAGTATGATTGCTTCAA
* * * *
38762496 TTTATCTGATGATGCACT-TTACGTGCCAGTATGAAAT-CTTTAG
1 TTTATCTGATGATGCACTATT-TGTGCCAGTATG-ATTGCTTCAA
* * *
38762539 TTTATTTGATGATGCACTATGTT-TGCTAGTATGATTGCTTCAG
1 TTTATCTGATGATGCACTAT-TTGTGCCAGTATGATTGCTTCAA
* * * * *
38762582 TTAATTTGATGATGCACTATGTGTGTCAGTATGATTGCTTCGA
1 TTTATCTGATGATGCACTATTTGTGCCAGTATGATTGCTTCAA
*
38762625 TTTATCTGATGATGCACTATGTGTGCCAGTAT
1 TTTATCTGATGATGCACTATTTGTGCCAGTAT
38762657 ATTTCCTTCG
Statistics
Matches: 134, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
42 5 0.04
43 125 0.93
44 3 0.02
45 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (43 bp):
TTTATCTGATGATGCACTATTTGTGCCAGTATGATTGCTTCAA
Found at i:38762592 original size:86 final size:85
Alignment explanation
Indices: 38762452--38762682 Score: 234
Period size: 86 Copynumber: 2.7 Consensus size: 85
38762442 ATTTCCCTAG
* * * * * *
38762452 GTTTATCTAATGATGCACTAT-TTGTGCCAATATGATTGTTTCAATTTATCTGATGATGCACTTT
1 GTTTATCTGATGATGCACTATGTT-TGCCAGTATGATTGCTTCAGTTTATTTGATGATGCACTAT
38762516 ACGTGCCAGTATGAAAT-CTTTA
65 ACGTGCCAGTATG-AATGC-TTA
* * * *
38762538 GTTTATTTGATGATGCACTATGTTTGCTAGTATGATTGCTTCAGTTAATTTGATGATGCACTATG
1 GTTTATCTGATGATGCACTATGTTTGCCAGTATGATTGCTTCAGTTTATTTGATGATGCACTATA
* * * *
38762603 TGTGTCAGTATGATTGCTTC
66 CGTGCCAGTATGAATGCTTA
* * * *
38762623 GATTTATCTGATGATGCACTATGTGTGCCAGTAT-ATTTCCTTCGGTTTATTCGATGATGC
1 G-TTTATCTGATGATGCACTATGTTTGCCAGTATGA-TTGCTTCAGTTTATTTGATGATGC
38762683 GTTGTGTTGC
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
85 6 0.05
86 112 0.93
87 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (85 bp):
GTTTATCTGATGATGCACTATGTTTGCCAGTATGATTGCTTCAGTTTATTTGATGATGCACTATA
CGTGCCAGTATGAATGCTTA
Found at i:38762666 original size:43 final size:44
Alignment explanation
Indices: 38762431--38762682 Score: 207
Period size: 43 Copynumber: 5.9 Consensus size: 44
38762421 TAAGCACCTT
* * * * *
38762431 TGTGCCAGTAT-ATTTCCCTAGGTTTATCTAATGATGCACTATT
1 TGTGCCAGTATGATTTCCTTCGATTTATCTGATGATGCACTATG
* * * *
38762474 TGTGCCAATATGATTGT--TTCAATTTATCTGATGATGCACTTTA
1 TGTGCCAGTATGATT-TCCTTCGATTTATCTGATGATGCACTATG
* ** * * *
38762517 CGTGCCAGTATGAAATCTTTAG-TTTATTTGATGATGCACTATG
1 TGTGCCAGTATGATTTCCTTCGATTTATCTGATGATGCACTATG
* * * * *
38762560 TTTGCTAGTATGA-TTGCTTC-AGTTAATTTGATGATGCACTATG
1 TGTGCCAGTATGATTTCCTTCGA-TTTATCTGATGATGCACTATG
* *
38762603 TGTGTCAGTATGA-TTGCTTCGATTTATCTGATGATGCACTATG
1 TGTGCCAGTATGATTTCCTTCGATTTATCTGATGATGCACTATG
*
38762646 TGTGCCAGTAT-ATTTCCTTCGGTTTAT-TCGATGATGC
1 TGTGCCAGTATGATTTCCTTCGATTTATCT-GATGATGC
38762683 GTTGTGTTGC
Statistics
Matches: 167, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
42 6 0.04
43 154 0.92
44 6 0.04
45 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (44 bp):
TGTGCCAGTATGATTTCCTTCGATTTATCTGATGATGCACTATG
Found at i:38771708 original size:46 final size:46
Alignment explanation
Indices: 38771483--38771710 Score: 316
Period size: 46 Copynumber: 5.0 Consensus size: 46
38771473 TTATCTTTGA
* * * *
38771483 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
38771529 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TCCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATGT
* *
38771575 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
38771621 CACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
38771667 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
38771711 TTCAGAGAGC
Statistics
Matches: 164, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 5 0.03
46 158 0.96
47 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:38781700 original size:44 final size:45
Alignment explanation
Indices: 38781623--38781727 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 45
38781613 CTCTAAGAAC
*
38781623 TCGCACACTTAGTG-CATAAATAATTAACTGAAGCTATAAT-GATA
1 TCGCACACTTAGTGCCATAAATAATTAACCGAAGCTAT-ATCGATA
* * *
38781667 TCGCACACTTAGTGCCAT-CAT-ATTAAACCGAAGCTATCTCGGTA
1 TCGCACACTTAGTGCCATAAATAATT-AACCGAAGCTATATCGATA
*
38781711 TCGCACAATTAGTGCCA
1 TCGCACACTTAGTGCCA
38781728 CTTATAGCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
43 4 0.08
44 46 0.87
45 3 0.06
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (45 bp):
TCGCACACTTAGTGCCATAAATAATTAACCGAAGCTATATCGATA
Found at i:38781813 original size:40 final size:41
Alignment explanation
Indices: 38781694--38781814 Score: 115
Period size: 40 Copynumber: 3.0 Consensus size: 41
38781684 TCATATTAAA
** **
38781694 CCGAAGCTATCTCGGTATCGCACAATT-AGTGCCACTTATAG
1 CCGAAGCTATCTCGAAATCGCAC-ATTAAGTGCCAAATATAG
* * * * *
38781735 CTGAAGCTAT-TCCAATTCGCACACTAAGTGCTC-TATATAG
1 CCGAAGCTATCTCGAAATCGCACATTAAGTGC-CAAATATAG
38781775 CCGAAGCTATCTCGAAAT-GCACATTAAGTGCCAAATATAG
1 CCGAAGCTATCTCGAAATCGCACATTAAGTGCCAAATATAG
38781815 TAGATTTGTC
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
39 3 0.05
40 45 0.71
41 15 0.24
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (41 bp):
CCGAAGCTATCTCGAAATCGCACATTAAGTGCCAAATATAG
Found at i:38788390 original size:43 final size:43
Alignment explanation
Indices: 38788341--38788430 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
38788331 GAGATATGTG
38788341 GCATCCGAGCTCGTGGAGAGGTCCAAGTTCATTATGGATGCAA
1 GCATCCGAGCTCGTGGAGAGGTCCAAGTTCATTATGGATGCAA
* * *
38788384 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTGGAGAGGTCCAAGTTCATTATGGATGCAA
38788427 GCAT
1 GCAT
38788431 TCAAGGTCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (43 bp):
GCATCCGAGCTCGTGGAGAGGTCCAAGTTCATTATGGATGCAA
Found at i:38788444 original size:43 final size:43
Alignment explanation
Indices: 38788341--38788468 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 43
38788331 GAGATATGTG
* * * * *
38788341 GCATCCGAGCTCGTGGAGAGGTCCAAGTTCATTATGGATGCAA
1 GCATCCAAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGA
* *
38788384 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
1 GCATCCAAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGA
* * * * *
38788427 GCATTCAAGGTCATTGAGAGGTCTGAGTTCATAATAGATGCG
1 GCATCCAAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCG
38788469 GTTCATGTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
GCATCCAAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGA
Found at i:38804562 original size:43 final size:44
Alignment explanation
Indices: 38804468--38804563 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 44
38804458 TGCACACATA
* *
38804468 ATGCATCATAGGGAAAGCCGAAGCAATTATACTAACATACGAGG
1 ATGCATCATCGGGAAAGCCGAAGCAATTATACTAAAATACGAGG
* *
38804512 -TGTATCATCGGGTAA-CTCGAAGCAATTATACTAAAATACG-GG
1 ATGCATCATCGGGAAAGC-CGAAGCAATTATACTAAAATACGAGG
38804554 ATGCATCATC
1 ATGCATCATC
38804564 AGACGAACCA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.07
43 42 0.93
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (44 bp):
ATGCATCATCGGGAAAGCCGAAGCAATTATACTAAAATACGAGG
Found at i:38804578 original size:43 final size:43
Alignment explanation
Indices: 38804488--38804586 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
38804478 GGGAAAGCCG
* * * *
38804488 AAGCAATTATACTAACATACGAGGTGTATCATCGGGTAACTCG
1 AAGCAATTATACTAAAATACGAGGTGCATCATCGCGTAACTCA
38804531 AAGCAATTATACTAAAATACG-GGATGCATCATCAGACG-AAC-CA
1 AAGCAATTATACTAAAATACGAGG-TGCATCATC-G-CGTAACTCA
*
38804574 AAGCAAATATACT
1 AAGCAATTATACT
38804587 GGCACACATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
42 2 0.04
43 41 0.85
44 4 0.08
45 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (43 bp):
AAGCAATTATACTAAAATACGAGGTGCATCATCGCGTAACTCA
Found at i:38804673 original size:42 final size:43
Alignment explanation
Indices: 38804626--38804726 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
38804616 AATCATGTTG
*
38804626 GCACATAAGTGCATCATT-GGATGTAACGAAGCAAA-TATACTA
1 GCACATAAGTGCATCATTCGGATATAACGAAG-AAATTATACTA
* * *
38804668 TCACATAAGTGTATC-TTCGGATATACCGAAGAAATTATACTA
1 GCACATAAGTGCATCATTCGGATATAACGAAGAAATTATACTA
*
38804710 GCACATAAGTCCATCAT
1 GCACATAAGTGCATCAT
38804727 CAACTAAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
41 5 0.10
42 43 0.88
43 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (43 bp):
GCACATAAGTGCATCATTCGGATATAACGAAGAAATTATACTA
Found at i:38811235 original size:18 final size:18
Alignment explanation
Indices: 38811212--38811246 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38811202 GGTATTATGA
* *
38811212 GCCCACATGCCCGTGTGT
1 GCCCACACGCCCATGTGT
38811230 GCCCACACGCCCATGTG
1 GCCCACACGCCCATGTG
38811247 GCACATACGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.43, G:0.26, T:0.17
Consensus pattern (18 bp):
GCCCACACGCCCATGTGT
Found at i:38816935 original size:132 final size:128
Alignment explanation
Indices: 38816681--38817027 Score: 388
Period size: 132 Copynumber: 2.6 Consensus size: 128
38816671 TATTCATTTA
* * * * *
38816681 AAAATTCTTTAAAACGAAGGCGAGGTTTGATATTTGGCAATTCGAGGAATCGTGCCCTAACGTGT
1 AAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGA--AATCGTGCCCTAACGTGC
* * * *
38816746 TGGGTTGCATTTTCCCGTTTGCTCAAAATGATCAAATATCCCTTCAAAATTTTGTTCATGTCTTT
64 TGGGTTGCAATTTCCCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATCTCGTTCATGT-TTT
38816811 T
128 T
*
38816812 AGAAATCCTTTAAAACGAAGACGATGTTCGATATTTGACAATTCGCTAAATCGTGCCCTAACGTG
1 A-AAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCG--AAATCGTGCCCTAACGTG
* * * * * *
38816877 CTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAATGTCCCTTTAGAATCTCGTTCATGTTTT
63 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATCTCGTTCATGTTTT
38816942 CT
128 -T
* * ** ** * *
38816944 AAAAACTCTTTAAAATGAAGGTAATACTCGATCTTTGACAATTCGAGAATCGTGCCCTATCGTGC
1 AAAATC-CTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGA-AATCGTGCCCTAACGTGC
*
38817009 TGGGTTGCGATTTCCCGTT
64 TGGGTTGCAATTTCCCGTT
38817028 CGTTCAATGA
Statistics
Matches: 183, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
130 1 0.01
131 42 0.23
132 139 0.76
134 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (128 bp):
AAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGAAATCGTGCCCTAACGTGCTG
GGTTGCAATTTCCCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATCTCGTTCATGTTTTT
Found at i:38819914 original size:16 final size:18
Alignment explanation
Indices: 38819880--38819915 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
38819870 AGGCCAAATT
38819880 GGGCGGTATGGGCCACAC
1 GGGCGGTATGGGCCACAC
38819898 GGGC-GTATGGG-CACAC
1 GGGCGGTATGGGCCACAC
38819914 GG
1 GG
38819916 CCAAGCCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 7 0.39
18 4 0.22
ACGTcount: A:0.17, C:0.25, G:0.47, T:0.11
Consensus pattern (18 bp):
GGGCGGTATGGGCCACAC
Found at i:38826466 original size:96 final size:95
Alignment explanation
Indices: 38826300--38826582 Score: 440
Period size: 96 Copynumber: 2.9 Consensus size: 95
38826290 AGGGTAAGAT
* *
38826300 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAACAAATTCGATGCCATATTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAC-AATTCGATGCCATGTTCCA
* * *
38826365 GACATGGTCTTACACTGGCTTACATATTGAG
65 AACATGGTCTTACACTAGCTCACATATTGAG
*
38826396 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATCTCGATTCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAT-TCGATGCCATGTTCCA
38826461 AACATGGTCTTACACTAGCTCACATATTGAG
65 AACATGGTCTTACACTAGCTCACATATTGAG
* *
38826492 GCTGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAACAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAT-TCGATGCCATGTTCCA
* * *
38826557 AACATGGTCTTAAACTTGGTCACATA
65 AACATGGTCTTACACTAGCTCACATA
38826583 ACCCTAGTAT
Statistics
Matches: 173, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
95 3 0.02
96 170 0.98
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATTCGATGCCATGTTCCAA
ACATGGTCTTACACTAGCTCACATATTGAG
Found at i:38826583 original size:48 final size:48
Alignment explanation
Indices: 38826302--38826584 Score: 293
Period size: 48 Copynumber: 5.9 Consensus size: 48
38826292 GGTAAGATGC
* * *
38826302 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAACAAAT-T
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAAC-AATGT
* * * *** * *
38826350 CGATGCCATATTCCAGACATGGTCTTACACTGGCTTACATATTGAGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAACAATGT
* * *
38826398 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATCT
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAACAATGT
* * *** *
38826446 CGATTCCATGTTCCAAACATGGTCTTACACTAGCTCACATATTGA-GG
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAACAATGT
*
38826493 CTGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATAACAATGT
1 C-GATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATAACAATGT
* * * *
38826542 CGATGCCATGTTCCAAACATGGTCTTAAACTTGGTCACATAAC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAAC
38826585 CCTAGTATCA
Statistics
Matches: 187, Mismatches: 43, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
47 5 0.03
48 177 0.95
49 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATAACAATGT
Found at i:38828980 original size:12 final size:12
Alignment explanation
Indices: 38828963--38828995 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
38828953 GGAATACACT
38828963 GTAACAGTAATA
1 GTAACAGTAATA
38828975 GTAACAGTAATA
1 GTAACAGTAATA
*
38828987 GTAGCAGTA
1 GTAACAGTA
38828996 GCGATACACA
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:0.45, C:0.09, G:0.21, T:0.24
Consensus pattern (12 bp):
GTAACAGTAATA
Found at i:38829906 original size:8 final size:8
Alignment explanation
Indices: 38829893--38829934 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
38829883 TCTATTTTCT
38829893 TTACTTTA
1 TTACTTTA
38829901 TTACTTTA
1 TTACTTTA
*
38829909 TTTCTTT-
1 TTACTTTA
* *
38829916 TTATTTTT
1 TTACTTTA
38829924 TTACTTTA
1 TTACTTTA
38829932 TTA
1 TTA
38829935 TATTATTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (8 bp):
TTACTTTA
Found at i:38829952 original size:31 final size:32
Alignment explanation
Indices: 38829885--38829952 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
38829875 TTCCCTGTTC
* *
38829885 TATTTTCTTTACTTTATTACTTTATTTCTTTT
1 TATTTTCTTTACTTTATTACTTTATTTCATTA
38829917 TATTTT-TTTACTTTATTA-TATTATTAT-ATTA
1 TATTTTCTTTACTTTATTACT-TTATT-TCATTA
38829948 TATTT
1 TATTT
38829953 AGTAATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 1 0.03
31 24 0.75
32 7 0.22
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (32 bp):
TATTTTCTTTACTTTATTACTTTATTTCATTA
Found at i:38837616 original size:11 final size:10
Alignment explanation
Indices: 38837585--38837618 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
38837575 CCTGAGTACT
38837585 AATGATTTTA
1 AATGATTTTA
*
38837595 AATTATTTTA
1 AATGATTTTA
38837605 AATGATTTTTA
1 AATGA-TTTTA
38837616 AAT
1 AAT
38837619 TCAAGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (10 bp):
AATGATTTTA
Found at i:38843455 original size:43 final size:42
Alignment explanation
Indices: 38843408--38843564 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 42
38843398 AACATATACA
*
38843408 ATGCCAACGTCCCAGACGTGGTCTTAGATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA-ATCG
** * * *
38843451 ATGCC-ACTGTCTTAGACAG-GGTCTTACACGAAATCAGAGA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCA-AAATCG
*** * * *
38843493 ATGTTGATGTCCCAGACATGGTCATACATGTAAAAT-AGAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT--AATCA-AAATCG
38843537 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
38843565 CAAAAACACA
Statistics
Matches: 84, Mismatches: 22, Indels: 15
0.69 0.18 0.12
Matches are distributed among these distances:
42 23 0.27
43 32 0.38
44 29 0.35
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAATCG
Found at i:38849927 original size:38 final size:39
Alignment explanation
Indices: 38849866--38849948 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 39
38849856 ACTGACTAGT
* * *
38849866 CCACATGGCCGACCACACGCCCATGTGCCAGCCCCT-TG
1 CCACACGGCCGACAACACACCCATGTGCCAGCCCCTGTG
*
38849904 CCACACGGCCGACAACACACCCATGTGCCAGCCCGTGTG
1 CCACACGGCCGACAACACACCCATGTGCCAGCCCCTGTG
38849943 CCACAC
1 CCACAC
38849949 TCGAGCAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 32 0.80
39 8 0.20
ACGTcount: A:0.22, C:0.47, G:0.20, T:0.11
Consensus pattern (39 bp):
CCACACGGCCGACAACACACCCATGTGCCAGCCCCTGTG
Found at i:38858860 original size:42 final size:42
Alignment explanation
Indices: 38858760--38858916 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
38858750 CCAATCTCCT
* * * *
38858760 AGACGTGGTCTTACATGTAATCAAATATTGATGCC-AC-TACCTC
1 AGACATGGTCTTACACGAAATCAAATA-TGATACCAACGT-CC-C
* * *
38858803 AGACAGGGTCTTACACGAAATCAAATATGATACCGATGTCCC
1 AGACATGGTCTTACACGAAATCAAATATGATACCAACGTCCC
* *
38858845 AGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACGTCCC
1 AGACATGGTCTTACACG-AAA--TCAAATATGATACCAACGTCCC
*
38858889 AGACATGGTCTTGCACGAAATCAAATAT
1 AGACATGGTCTTACACGAAATCAAATAT
38858917 CGAAAATCCT
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
41 6 0.06
42 23 0.24
43 32 0.34
44 28 0.29
45 6 0.06
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAATATGATACCAACGTCCC
Found at i:38858894 original size:44 final size:44
Alignment explanation
Indices: 38858802--38858910 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
38858792 GCCACTACCT
* * * *
38858802 CAGACAGGGTCTTACACGAAA--TCAAATATGATACCGATGTCC
1 CAGACATGGTCTTACACGAAATCTCAAATACGATACCAACGTCC
*
38858844 CAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACGTCC
1 CAGACATGGTCTTACACG-AAATCTCAAATACGATACCAACGTCC
*
38858888 CAGACATGGTCTTGCACGAAATC
1 CAGACATGGTCTTACACGAAATC
38858911 AAATATCGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 17 0.29
43 8 0.14
44 27 0.47
45 6 0.10
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (44 bp):
CAGACATGGTCTTACACGAAATCTCAAATACGATACCAACGTCC
Found at i:38866957 original size:40 final size:39
Alignment explanation
Indices: 38866913--38867045 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 39
38866903 GCTCATCGTT
* *
38866913 CAAATGCCTTCAGGACATAGCCGAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TAACCGAGATT-TAGTAACTCGCA
38866953 CAAATGCCTTCGGGACTGAACCCG-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACT-AA-CCGAGATTTAGTAACTCGCA
* *
38866993 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCACA
1 CAAATGCCTTCGGGAC-TAACCGAGATTTAGTAACTCGCA
*
38867033 TAAATGCCTTCGG
1 CAAATGCCTTCGG
38867046 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
39 3 0.04
40 74 0.89
41 6 0.07
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTAACCGAGATTTAGTAACTCGCA
Found at i:38867058 original size:80 final size:81
Alignment explanation
Indices: 38866913--38867091 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 81
38866903 GCTCATCGTT
* * * * *
38866913 CAAATGCCTTCAGGACATAGCCGAGTTATAGTAACTCGCACAAATGCCTTCGGGACTGAACCCGG
1 CAAATGCCTTCGGGACTTAACCCAGTTATAGTAACTCACACAAATGCCTTCGGGACTGAACCCGG
* *
38866978 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* * **
38866993 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCACATAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAACCCAG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTGAACCC
* *
38867056 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
38867074 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
38867092 GCCCGGACAT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 3 0.04
80 70 0.84
81 10 0.12
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAACCCAGTTATAGTAACTCACACAAATGCCTTCGGGACTGAACCCGG
ATATAGTAACTTAGCA
Found at i:38874893 original size:40 final size:40
Alignment explanation
Indices: 38874849--38875034 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
38874839 GCTCCTCGTT
*
38874849 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38874889 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38874929 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38874969 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38875010 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38875035 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38877446 original size:44 final size:43
Alignment explanation
Indices: 38877301--38877463 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
38877291 AGCTCGTACA
* * * * *
38877301 ATGCCAACGTCCTAGACGTGGTCTTACA-TATA-ATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATATC-AA-ATCG
* * *
38877344 ATGCCACTATCCCAGACAAGGTCTTACACG-AA-ATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAAAT-CG
* ** * *
38877386 TTGCTGATGTCTCAGACATGGTCTTATACGTAAATATCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATATCAAATCG
38877430 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
38877464 CAAATATCGG
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 2 0.02
42 26 0.28
43 30 0.32
44 29 0.31
45 7 0.07
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAAATCG
Found at i:38877484 original size:44 final size:42
Alignment explanation
Indices: 38877309--38877484 Score: 137
Period size: 43 Copynumber: 4.1 Consensus size: 42
38877299 CAATGCCAAC
* * *
38877309 GTCCTAGACGTGGTCTTACA-TATAATCAAATATCGATGCC-ACT
1 GTCCCAGACATGGTCTTACACGA-AATCAAATATCGAT-CCTA-T
* * * *
38877352 ATCCCAGACAAGGTCTTACACGAAATCAAATA-CGTTGCTGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATCCT-AT
* * *
38877394 GTCTCAGACATGGTCTTATACGTAAAT-ATCAA-ATCGATGCCAAT
1 GTCCCAGACATGGTCTTACACG-AAATCA--AATATCGAT-CCTAT
38877438 GTCCCAGACATGGTCTTACACGAAATCAAATATCGGAATCCTAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATC-G-ATCCTAT
38877482 GTC
1 GTC
38877485 ATGACATATG
Statistics
Matches: 104, Mismatches: 17, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
41 1 0.01
42 25 0.24
43 38 0.37
44 37 0.36
45 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATCCTAT
Found at i:38880086 original size:96 final size:96
Alignment explanation
Indices: 38879903--38880182 Score: 382
Period size: 96 Copynumber: 2.9 Consensus size: 96
38879893 GGTAAGATGT
* * * * * * * *
38879903 CGATGCCATGTTCTAGATATGGTCTTACACTAGCTTTCGTAA-AAAGCCGATGCCATGTTCTAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCAATGCCATGTTCCAAA
*
38879967 CATGGTCTTATACTGGCTCACATATTGAGGC
66 CATGGTCTTACACTGGCTCACATATTGAGGC
* * *
38879998 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCAATGGCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCAATGCCATGTTCCAAA
* *
38880063 TATGGTCTTACACTGGCTTACATATTGAGGC
66 CATGGTCTTACACTGGCTCACATATTGAGGC
* * * *
38880094 TGATGCTATGTCTCAGACATGGTCTTACATTAGCTCTCATAACAATGCCAATGCCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCAATGCCATGTTCCAAA
*
38880159 CATGGTCTTACACTGGCACACATA
66 CATGGTCTTACACTGGCTCACATA
38880183 ACCCTAGTAT
Statistics
Matches: 160, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 36 0.22
96 124 0.77
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCAATGCCATGTTCCAAA
CATGGTCTTACACTGGCTCACATATTGAGGC
Found at i:38880183 original size:48 final size:48
Alignment explanation
Indices: 38879905--38880184 Score: 204
Period size: 48 Copynumber: 5.9 Consensus size: 48
38879895 TAAGATGTCG
* * * * ** * * *
38879905 ATGCCATGTTCTAGATATGGTCTTACACTAGCTTTCGTAA-AAAGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGCCA
* * *** *
38879952 ATGCCATGTTCTAAACATGGTCTTATACTGGCTCACATATTGAGGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGCCA
* * * * * * *
38880000 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTCA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGCCA
* * * *** **
38880048 ATGGCATGTTCCAAATATGGTCTTACACTGGCTTACATATTGAGGCTG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGCCA
* * * * * *
38880096 ATGCTATG-TCTCAGACATGGTCTTACATTAGCTCTCATAACAATGCCA
1 ATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATAACAAGGCCA
*
38880144 ATGCCATGTTCCAAACATGGTCTTACACTGGCACACATAAC
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAAC
38880185 CCTAGTATCA
Statistics
Matches: 172, Mismatches: 58, Indels: 5
0.73 0.25 0.02
Matches are distributed among these distances:
47 34 0.20
48 136 0.79
49 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (48 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAAGGCCA
Found at i:38902316 original size:93 final size:93
Alignment explanation
Indices: 38902157--38902328 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
38902147 GCCCATAAGT
* *
38902157 GAACTCGGATTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGATTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38902222 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
38902250 GAACTCGGACTT-AACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGA-TTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
38902314 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
38902329 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGATTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:38902324 original size:46 final size:46
Alignment explanation
Indices: 38902149--38902324 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
38902139 TGTAATCCGC
* * * *
38902149 CCATAAGTGAACTCGGATTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
38902195 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * *
38902245 CTC-T---CGAACTCGGACTTAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
38902288 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
38902325 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.58
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:38917138 original size:34 final size:34
Alignment explanation
Indices: 38917100--38917165 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
38917090 TCTGATACTG
38917100 TACTGAAATGGGCTAAGGCCCACACTAATACTAT
1 TACTGAAATGGGCTAAGGCCCACACTAATACTAT
* * *
38917134 TACTGTATTGGGCTAAGGCCCACACTGATACT
1 TACTGAAATGGGCTAAGGCCCACACTAATACT
38917166 GCAATTGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCACACTAATACTAT
Found at i:38917180 original size:34 final size:33
Alignment explanation
Indices: 38917107--38917194 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 33
38917097 CTGTACTGAA
* **
38917107 ATGGGCTAAGGCCCACACTAATACTATTACTGT
1 ATGGGCTAAGGCCCACACTGATACTACAACTGT
* *
38917140 ATTGGGCTAAGGCCCACACTGATACTGCAATTGAT
1 A-TGGGCTAAGGCCCACACTGATACTACAACTG-T
*
38917175 ATGGGCTTAA-GCCCAGACTG
1 ATGGGC-TAAGGCCCACACTG
38917195 TTCAACACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
33 1 0.02
34 40 0.87
35 5 0.11
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (33 bp):
ATGGGCTAAGGCCCACACTGATACTACAACTGT
Found at i:38921522 original size:5 final size:5
Alignment explanation
Indices: 38921514--38921540 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38921504 CAAAAATAAA
38921514 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
38921541 GGTTGACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:38921655 original size:17 final size:17
Alignment explanation
Indices: 38921633--38921686 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
38921623 AAATTGTACA
38921633 AAATAGCTATGGAATTC
1 AAATAGCTATGGAATTC
*
38921650 AAATAGCTATAGGTA-TC
1 AAATAGCTAT-GGAATTC
38921667 AAATAGCTATGGAATTC
1 AAATAGCTATGGAATTC
38921684 AAA
1 AAA
38921687 ACTTAAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 3 0.09
17 27 0.82
18 3 0.09
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (17 bp):
AAATAGCTATGGAATTC
Found at i:38926641 original size:23 final size:21
Alignment explanation
Indices: 38926587--38926640 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
38926577 CCGGTTAGGG
38926587 ACACGGGTGTGTCCCTCGACC
1 ACACGGGTGTGTCCCTCGACC
38926608 ACACGGGTGTGTCCCTCGACC
1 ACACGGGTGTGTCCCTCGACC
*
38926629 ACACGGGCGTGT
1 ACACGGGTGTGT
38926641 GAGCCCTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.15, C:0.35, G:0.31, T:0.19
Consensus pattern (21 bp):
ACACGGGTGTGTCCCTCGACC
Found at i:38928018 original size:39 final size:39
Alignment explanation
Indices: 38927975--38928088 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
38927965 CAGGACATAT
* * *
38927975 TTCCAGCACGTAGCCTGCAGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
38928014 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
*
38928053 TTCCAGCACATAGCCCGCGGACCTTAAGTCCGGATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
38928089 AACATCACTG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:38928020 original size:78 final size:78
Alignment explanation
Indices: 38927931--38928085 Score: 181
Period size: 78 Copynumber: 2.0 Consensus size: 78
38927921 TTAAACTCGG
* * * * *
38927931 TATAATACCAGCTCGA-AGCCTACGGGA-CTTTAG-CCAGGACATATTTCCAGCACGTAGCCTGC
1 TATAATACCAGCAC-ATAGCCTAC-GGACCTTAAGTCC-GGACATAATTCCAGCACATAGCCCGC
38927993 AGACCTTAAGTCCGGT
63 AGACCTTAAGTCCGGT
* * * *
38928009 TATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCCGCGGA
1 TATAATACCAGCACATAGCCTACGGACCTTAAGTCCGGACATAATTCCAGCACATAGCCCGCAGA
38928074 CCTTAAGTCCGG
66 CCTTAAGTCCGG
38928086 ATAAACATCA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
77 4 0.06
78 59 0.91
79 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTACGGACCTTAAGTCCGGACATAATTCCAGCACATAGCCCGCAGA
CCTTAAGTCCGGT
Found at i:38932126 original size:25 final size:25
Alignment explanation
Indices: 38932097--38932146 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
38932087 CCTTATAACA
* * *
38932097 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
38932122 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
38932147 GTTTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:38932249 original size:20 final size:20
Alignment explanation
Indices: 38932192--38932249 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
38932182 AACATGGTAC
*
38932192 GTATGATATGCACATGACAT
1 GTATGATATGCACATGATAT
*
38932212 GTATTATATGCACATGATAT
1 GTATGATATGCACATGATAT
38932232 GTATGATATGCACATGAT
1 GTATGATATGCACATGAT
38932250 GTATTCATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:38932325 original size:24 final size:24
Alignment explanation
Indices: 38932298--38932428 Score: 210
Period size: 24 Copynumber: 5.5 Consensus size: 24
38932288 GGAGGAAGTG
38932298 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38932322 CAAAAAGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38932346 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
38932370 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
38932394 AAAAAAGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
38932417 CTAAAAGGGCTT
1 C-AAAAGGGCTT
38932429 GCATTCATTT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 98 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:38940394 original size:11 final size:11
Alignment explanation
Indices: 38940358--38940413 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
38940348 CATGGTATGT
38940358 ATGATATGCAC
1 ATGATATGCAC
* *
38940369 ATGACATG--T
1 ATGATATGCAC
38940378 ATGATATGCAC
1 ATGATATGCAC
*
38940389 ATGATATG--T
1 ATGATATGCAC
38940398 ATGATATGCAC
1 ATGATATGCAC
38940409 ATGAT
1 ATGAT
38940414 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:38940413 original size:20 final size:20
Alignment explanation
Indices: 38940347--38940413 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
38940337 ATTTTGATAA
*
38940347 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38940367 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38940387 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38940407 ACATGAT
1 ACATGAT
38940414 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38940489 original size:24 final size:24
Alignment explanation
Indices: 38940462--38940630 Score: 225
Period size: 24 Copynumber: 7.0 Consensus size: 24
38940452 GGAGGAAGTG
38940462 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38940486 CAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38940510 AAAAAGGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38940533 CTAAAAGGGCTTACGCCCCAGTTAT
1 C-AAAAGGGCTTATGCCCCAGTTAT
*
38940558 TAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
38940582 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
38940606 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
38940631 ATGATAAAGC
Statistics
Matches: 131, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
24 120 0.92
25 11 0.08
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:38940587 original size:72 final size:72
Alignment explanation
Indices: 38940463--38940630 Score: 248
Period size: 72 Copynumber: 2.3 Consensus size: 72
38940453 GAGGAAGTGC
*
38940463 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAATTATAAAAAGGGCTTATGCCCC
1 AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCAATTATAAAAAGGGCTTATGCCCC
38940528 AGTTACT
66 AGTTACT
* * * *
38940535 AAAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCAATTATAAAAAGGGCTTATGCCCC
*
38940600 AGTTATT
66 AGTTACT
*
38940607 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
38940631 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
72 76 0.87
73 11 0.13
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCAATTATAAAAAGGGCTTATGCCCC
AGTTACT
Found at i:38946819 original size:39 final size:39
Alignment explanation
Indices: 38946776--38946889 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
38946766 CTGGACATAT
* * *
38946776 TTCCAGCACGTAGCCTGCAGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
*
38946815 TTCCAGCACATAGCCTGTGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
* *
38946854 TTCCAGCACATAGCATGCGGACCCTAAGTCCGGATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
38946890 AACATCACTG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:38948985 original size:27 final size:27
Alignment explanation
Indices: 38948947--38949008 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
38948937 TTGAGCACAT
* *
38948947 AAAGTAGAACTCAGCAAAGAAAAAAGA
1 AAAGCAGAACTCAACAAAGAAAAAAGA
38948974 AAAGCAGAACTCAACAAAGAAAAAAGA
1 AAAGCAGAACTCAACAAAGAAAAAAGA
38949001 AAAGCAGA
1 AAAGCAGA
38949009 TACTTGTGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.65, C:0.13, G:0.18, T:0.05
Consensus pattern (27 bp):
AAAGCAGAACTCAACAAAGAAAAAAGA
Found at i:38951451 original size:18 final size:18
Alignment explanation
Indices: 38951424--38951459 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38951414 AGTTAAAGAA
38951424 TTAAGGAAGCTACCTGGG
1 TTAAGGAAGCTACCTGGG
* *
38951442 TTAAGTAAGCTACTTGGG
1 TTAAGGAAGCTACCTGGG
38951460 AATCGGAAGA
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:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (18 bp):
TTAAGGAAGCTACCTGGG
Found at i:38953983 original size:23 final size:22
Alignment explanation
Indices: 38953957--38954077 Score: 84
Period size: 22 Copynumber: 5.4 Consensus size: 22
38953947 CAGCTTATTG
38953957 GAGCTTACCGATTTAGCTTGAAA
1 GAGCTTACCG-TTTAGCTTGAAA
** * *
38953980 GAGCTTATTGTTGAGC-TCAATA
1 GAGCTTACCGTTTAGCTTGAA-A
* * *
38954002 GAGCTTATCGTTTCAGCTTGTAT
1 GAGCTTACCGTTT-AGCTTGAAA
* * *
38954025 GAGCTTACTGTTCAGCTTGATA
1 GAGCTTACCGTTTAGCTTGAAA
*
38954047 GAGCTTACCGTTTCAGC-TCAATA
1 GAGCTTACCGTTT-AGCTTGAA-A
38954070 GAGCTTAC
1 GAGCTTAC
38954078 TGTTCATCAG
Statistics
Matches: 74, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
21 3 0.04
22 36 0.49
23 33 0.45
24 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (22 bp):
GAGCTTACCGTTTAGCTTGAAA
Found at i:38954004 original size:22 final size:22
Alignment explanation
Indices: 38953979--38954083 Score: 97
Period size: 23 Copynumber: 4.7 Consensus size: 22
38953969 TTAGCTTGAA
* *
38953979 AGAGCTTATTGTTGAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
**
38954001 AGAGCTTA-TCGTTTCAGCT-TGT
1 AGAGCTTACT-G-TTCAGCTCAAT
**
38954023 ATGAGCTTACTGTTCAGCTTGAT
1 A-GAGCTTACTGTTCAGCTCAAT
*
38954046 AGAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACTG-TTCAGCTCAAT
38954069 AGAGCTTACTGTTCA
1 AGAGCTTACTGTTCA
38954084 TCAGCTCAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
21 1 0.01
22 31 0.46
23 35 0.51
24 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:38954020 original size:45 final size:45
Alignment explanation
Indices: 38953924--38954083 Score: 153
Period size: 45 Copynumber: 3.5 Consensus size: 45
38953914 AGACTCACTA
* * * * * *
38953924 CAGCTTGAAGGAGATTACGGTTTCAGCTTATTGGAGCTTACCGATTT
1 CAGCTTGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTACCG-TTT
* * *
38953971 -AGCTTGAAAGAGCTTATTGTTGAGCTCAATAGAGCTTATCGTTT
1 CAGCTTGAAAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTT
* * **
38954015 CAGCTTGTATGAGCTTACTGTTCAGCTTGATAGAGCTTACCGTTT
1 CAGCTTGAAAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTT
*
38954060 CAGC-TCAATAGAGCTTACTGTTCA
1 CAGCTTGAA-AGAGCTTACTGTTCA
38954084 TCAGCTCAGG
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
44 5 0.05
45 72 0.78
46 15 0.16
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (45 bp):
CAGCTTGAAAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTT
Found at i:38954065 original size:68 final size:68
Alignment explanation
Indices: 38953943--38954076 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 68
38953933 GGAGATTACG
* ** *
38953943 GTTTCAGCTTATTGGAGCTTACCGATTTAGCTTGAAAGAGCTTATTGTTGAGCTCAATAGAGCTT
1 GTTTCAGCTTATTGGAGCTTACCGATTCAGCTTGAAAGAGCTTACCGTTCAGCTCAATAGAGCTT
38954008 ATC
66 ATC
* * *
38954011 GTTTCAGCTTGTAT-GAGCTTACTG-TTCAGCTTGATAGAGCTTACCGTTTCAGCTCAATAGAGC
1 GTTTCAGCTTAT-TGGAGCTTACCGATTCAGCTTGAAAGAGCTTACCG-TTCAGCTCAATAGAGC
38954074 TTA
64 TTA
38954077 CTGTTCATCA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 18 0.32
68 38 0.67
69 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (68 bp):
GTTTCAGCTTATTGGAGCTTACCGATTCAGCTTGAAAGAGCTTACCGTTCAGCTCAATAGAGCTT
ATC
Found at i:38954103 original size:26 final size:23
Alignment explanation
Indices: 38953993--38954105 Score: 97
Period size: 23 Copynumber: 4.8 Consensus size: 23
38953983 CTTATTGTTG
*
38953993 AGCTCAATAGAGCTTATCGTTTC
1 AGCTCAATAGAGCTTACCGTTTC
** *
38954016 AGCT-TGTATGAGCTTACTG-TTC
1 AGCTCAATA-GAGCTTACCGTTTC
**
38954038 AGCTTGATAGAGCTTACCGTTTC
1 AGCTCAATAGAGCTTACCGTTTC
*
38954061 AGCTCAATAGAGCTTACTGTTCATC
1 AGCTCAATAGAGCTTACCGTT--TC
38954086 AGCTCAGGAT-GAGCTTACCG
1 AGCTCA--ATAGAGCTTACCG
38954106 AAAATGACTC
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
22 18 0.25
23 35 0.49
25 8 0.11
26 9 0.12
27 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACCGTTTC
Found at i:38955262 original size:67 final size:67
Alignment explanation
Indices: 38955191--38955336 Score: 220
Period size: 67 Copynumber: 2.2 Consensus size: 67
38955181 ACGGGCCACC
* ** *
38955191 ACACGGGCGTGTCTTGAGACTATGTCGATAAGTCAGTATGTATACCCTATTTTGCCATGGCCTAG
1 ACACGGGCGTGTCTTGAGACCATGTAAATAAGTCAGTATGTATACCCTATTTTGCCACGGCCTAG
38955256 AT
66 AT
* **
38955258 ACACGGCCGTGTCTTGAGACCATGTAAATAAGTCAGTATGTATGTCCTATTTTGCCACGGCCTAG
1 ACACGGGCGTGTCTTGAGACCATGTAAATAAGTCAGTATGTATACCCTATTTTGCCACGGCCTAG
38955323 AT
66 AT
*
38955325 ACATGGGCGTGT
1 ACACGGGCGTGT
38955337 GACACATAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (67 bp):
ACACGGGCGTGTCTTGAGACCATGTAAATAAGTCAGTATGTATACCCTATTTTGCCACGGCCTAG
AT
Found at i:38963154 original size:22 final size:22
Alignment explanation
Indices: 38963107--38963231 Score: 128
Period size: 23 Copynumber: 5.5 Consensus size: 22
38963097 CAGCTTATTG
*
38963107 GAGCTTATTGATTTAGCTCGAA-A
1 GAGCTTACTG-TTTAGCTC-AATA
*
38963130 GAGCTTACTGTTTAGATCAATA
1 GAGCTTACTGTTTAGCTCAATA
*
38963152 GAGCTTACTGTTTCAGCTC-GTA
1 GAGCTTACTGTTT-AGCTCAATA
* *
38963174 TGAGCTTACTGTTCAGCTCGATA
1 -GAGCTTACTGTTTAGCTCAATA
* *
38963197 GAGCTTACCGTTTCAGCTTAATA
1 GAGCTTACTGTTT-AGCTCAATA
38963220 GAGCTTACTGTT
1 GAGCTTACTGTT
38963232 CATCAGCTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
21 2 0.02
22 39 0.45
23 45 0.52
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (22 bp):
GAGCTTACTGTTTAGCTCAATA
Found at i:38963171 original size:45 final size:45
Alignment explanation
Indices: 38963074--38963231 Score: 158
Period size: 45 Copynumber: 3.5 Consensus size: 45
38963064 GGACTCACTA
* * * * * *
38963074 CAGCTCGAAAGAGCTTATTATTTCAGCTTATTGGAGCTTATTGATTT
1 CAGCTCGAAAGAGCTTACTGTTT-AGCTCAATAGAGCTTACTG-TTT
*
38963121 -AGCTCGAAAGAGCTTACTGTTTAGATCAATAGAGCTTACTGTTT
1 CAGCTCGAAAGAGCTTACTGTTTAGCTCAATAGAGCTTACTGTTT
* * * * *
38963165 CAGCTCGTATGAGCTTACTGTTCAGCTCGATAGAGCTTACCGTTT
1 CAGCTCGAAAGAGCTTACTGTTTAGCTCAATAGAGCTTACTGTTT
*
38963210 CAGCT-TAATAGAGCTTACTGTT
1 CAGCTCGAA-AGAGCTTACTGTT
38963232 CATCAGCTTA
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
44 4 0.04
45 69 0.74
46 20 0.22
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (45 bp):
CAGCTCGAAAGAGCTTACTGTTTAGCTCAATAGAGCTTACTGTTT
Found at i:38969161 original size:18 final size:19
Alignment explanation
Indices: 38969138--38969173 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38969128 AATATTACAC
38969138 AATTCAA-TTTCACATTAA
1 AATTCAATTTTCACATTAA
38969156 AATTCAATTTTCACATTA
1 AATTCAATTTTCACATTA
38969174 TATTTTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTCAATTTTCACATTAA
Found at i:38969599 original size:13 final size:13
Alignment explanation
Indices: 38969581--38969612 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
38969571 GTGACTCTTC
38969581 TTCTTTTCTTTAT
1 TTCTTTTCTTTAT
*
38969594 TTCTTTTCTTTCT
1 TTCTTTTCTTTAT
38969607 TTCTTT
1 TTCTTT
38969613 ATAATTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTTCTTTAT
Found at i:38970687 original size:29 final size:29
Alignment explanation
Indices: 38970654--38970712 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
38970644 TCTGCCTTGA
* *
38970654 CACAAATTCTCAACGAACAAGTTCTTCAC
1 CACAAACTCTCAACGAACAAGTTCTCCAC
38970683 CACAAACTCTCAACGAACAAGTTCTCCAC
1 CACAAACTCTCAACGAACAAGTTCTCCAC
38970712 C
1 C
38970713 TCTTCCATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.36, G:0.07, T:0.20
Consensus pattern (29 bp):
CACAAACTCTCAACGAACAAGTTCTCCAC
Found at i:38973266 original size:51 final size:51
Alignment explanation
Indices: 38973211--38973310 Score: 112
Period size: 51 Copynumber: 2.0 Consensus size: 51
38973201 CTACCACATA
* * *
38973211 ACATGTAA-CACATCCATAATGAACTCAGACCTCTCAACGAGCTCGAATGTT
1 ACATG-AATCACATCCAGAATGAACTCAGACCACTCAACGAGCTCCAATGTT
** * * *
38973262 ACATGAATCGTATCCAGCATGAACTCGGACCACTCTACGAGCTCCAATG
1 ACATGAATCACATCCAGAATGAACTCAGACCACTCAACGAGCTCCAATG
38973311 CTCGCATCCA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
50 2 0.05
51 38 0.95
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (51 bp):
ACATGAATCACATCCAGAATGAACTCAGACCACTCAACGAGCTCCAATGTT
Found at i:38975988 original size:20 final size:20
Alignment explanation
Indices: 38975963--38976024 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
38975953 CCTGTACAGC
*
38975963 TTTGCACTTTGGTGCCGCTG
1 TTTGCACTTTGGTGCCGCTA
* *
38975983 TTTGCACTTCT-GTGACTCTA
1 TTTGCACTT-TGGTGCCGCTA
*
38976003 TTTGCACTTTGGTGCCTCTA
1 TTTGCACTTTGGTGCCGCTA
38976023 TT
1 TT
38976025 ACGCATCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCGCTA
Found at i:38979485 original size:47 final size:47
Alignment explanation
Indices: 38979329--38979904 Score: 909
Period size: 47 Copynumber: 12.1 Consensus size: 47
38979319 GAAATGATAG
*
38979329 TAAGGCCTAATGGCCGATTTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
38979378 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAG--TGTATATATGTGA
*
38979427 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38979474 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38979521 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38979568 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAG--TGTATATATGTGA
*
38979617 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38979664 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38979713 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38979760 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38979807 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
38979854 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38979901 TAAG
1 TAAG
38979905 TCCCGAAGGG
Statistics
Matches: 490, Mismatches: 31, Indels: 14
0.92 0.06 0.03
Matches are distributed among these distances:
47 323 0.66
49 166 0.34
51 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Done.