Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012477.1 Kokia drynarioides strain JFW-HI SEQ_127481, 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: 96994
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 93 characters in sequence are not A, C, G, or T
Found at i:78 original size:7 final size:6
Alignment explanation
Indices: 24--139 Score: 59
Period size: 6 Copynumber: 20.0 Consensus size: 6
14 TGGGTTTTAT
* * **
24 TTTAAA TTTTAAA TTTGAAA -ATAAT TTTAAA CGTAAA -TTAAA TTTAAA
1 TTTAAA -TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
72 TTTTAAA --CAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTTAAA --CAAA
1 -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA
* *
117 TTTAAT TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
140 GGGAGTATGG
Statistics
Matches: 81, Mismatches: 17, Indels: 23
0.67 0.14 0.19
Matches are distributed among these distances:
4 6 0.07
5 14 0.17
6 40 0.49
7 21 0.26
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:83 original size:17 final size:17
Alignment explanation
Indices: 63--139 Score: 111
Period size: 17 Copynumber: 4.5 Consensus size: 17
53 AACGTAAATT
63 AAATTTAAATTTTAAAC
1 AAATTTAAATTTTAAAC
* *
80 AAATTTAAATTTAAAAT
1 AAATTTAAATTTTAAAC
97 AAATTTAAATTTTAAAC
1 AAATTTAAATTTTAAAC
*
114 AAATTT-AATTTTAAAAT
1 AAATTTAAATTTT-AAAC
131 AAATTTAAA
1 AAATTTAAA
140 GGGAGTATGG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
16 6 0.11
17 45 0.85
18 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTTAAATTTTAAAC
Found at i:91 original size:23 final size:23
Alignment explanation
Indices: 46--94 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
36 ATTTGAAAAT
46 AATTTTAAACGTAAATTAAATTTA
1 AATTTTAAACG-AAATTAAATTTA
70 AATTTTAAAC-AAATTTAAATTTA
1 AATTTTAAACGAAA-TTAAATTTA
93 AA
1 AA
95 ATAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 3 0.12
23 11 0.46
24 10 0.42
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
AATTTTAAACGAAATTAAATTTA
Found at i:100 original size:34 final size:34
Alignment explanation
Indices: 63--139 Score: 145
Period size: 34 Copynumber: 2.3 Consensus size: 34
53 AACGTAAATT
63 AAATTTAAATTTTAAACAAATTTAAATTTAAAAT
1 AAATTTAAATTTTAAACAAATTTAAATTTAAAAT
*
97 AAATTTAAATTTTAAACAAATTTAATTTTAAAAT
1 AAATTTAAATTTTAAACAAATTTAAATTTAAAAT
131 AAATTTAAA
1 AAATTTAAA
140 GGGAGTATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (34 bp):
AAATTTAAATTTTAAACAAATTTAAATTTAAAAT
Found at i:1398 original size:30 final size:30
Alignment explanation
Indices: 1359--1681 Score: 134
Period size: 30 Copynumber: 11.0 Consensus size: 30
1349 TGGATACTCG
* *
1359 GGGGGCAAAATGGTAATTTTGGGAAAGTTT
1 GGGGTCAAAATGGTAATTTTTGGAAAGTTT
** * * *
1389 GGGGTCAAAAACGAAATTTTTAGACA-TTT
1 GGGGTCAAAATGGTAATTTTTGGAAAGTTT
* * ** **
1418 GGAGGTAAAAATGTTAA-TTTTAAAAAAATT
1 GG-GGTCAAAATGGTAATTTTTGGAAAGTTT
*
1448 GGGGTCAAAAATGG-AATTTTT-AAAAGTTT
1 GGGGTC-AAAATGGTAATTTTTGGAAAGTTT
** * ** *
1477 AGCTGTAAAAATGGTAATTTTTGGAAAAATC
1 -GGGGTCAAAATGGTAATTTTTGGAAAGTTT
** * *
1508 AAGGTAAAAAATGG-AATTTTTGG-AAGTTCG
1 GGGGT-CAAAATGGTAATTTTTGGAAAGTT-T
* * *
1538 GGGGT-AAAATGGTAATTTTTAGAAA-ATG
1 GGGGTCAAAATGGTAATTTTTGGAAAGTTT
* *
1566 GGGGTCAAAATGGT-ATTTTAGG-AAGTTC
1 GGGGTCAAAATGGTAATTTTTGGAAAGTTT
* ** *
1594 GAGGT-AAAATGGTAATTTTTGGAAAAATC
1 GGGGTCAAAATGGTAATTTTTGGAAAGTTT
* * * *
1623 GAGGTTAAAAAT-GAAATTTTTGG-AAGTTCG
1 G-GGGTCAAAATGGTAATTTTTGGAAAGTT-T
**
1653 GGGGT-AAAATGGTAATTTTTAAAAAGTTT
1 GGGGTCAAAATGGTAATTTTTGGAAAGTTT
1682 AGGGACCTTT
Statistics
Matches: 218, Mismatches: 55, Indels: 41
0.69 0.18 0.13
Matches are distributed among these distances:
27 10 0.05
28 36 0.17
29 69 0.32
30 86 0.39
31 17 0.08
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (30 bp):
GGGGTCAAAATGGTAATTTTTGGAAAGTTT
Found at i:1467 original size:59 final size:59
Alignment explanation
Indices: 1387--1677 Score: 218
Period size: 59 Copynumber: 5.0 Consensus size: 59
1377 TTGGGAAAGT
* * *
1387 TTGGGGTCAAAAACGAAATTTTTAGACA-TTTGGAGGTAAAAATGTTAATTTTAAAAAAA
1 TTGGGGTCAAAAATGGAATTTTTAGA-AGTTTGGAGGTAAAAATGGTAATTTTAAAAAAA
* * ** **
1446 TTGGGGTCAAAAATGGAATTTTTAAAAGTTTAGCTGTAAAAATGGTAATTTTTGGAAAAA
1 TTGGGGTCAAAAATGGAATTTTTAGAAGTTTGGAGGTAAAAATGGTAA-TTTTAAAAAAA
*** * * * * * *
1506 TCAAGGTAAAAAATGGAATTTTTGGAAGTTCGGGGGT-AAAATGGTAATTTTTAGAAAA
1 TTGGGGTCAAAAATGGAATTTTTAGAAGTTTGGAGGTAAAAATGGTAATTTTAAAAAAA
* * * **
1564 TGGGGGTC-AAAATGGTA-TTTTAGGAAG-TTCGAGGT-AAAATGGTAATTTTTGGAAAAA
1 TTGGGGTCAAAAATGGAATTTTTA-GAAGTTTGGAGGTAAAAATGGTAA-TTTTAAAAAAA
* * * * * * * *
1621 TCGAGGTTAAAAATGAAATTTTTGGAAGTTCGGGGGT-AAAATGGTAATTTTTAAAAA
1 TTGGGGTCAAAAATGGAATTTTTAGAAGTTTGGAGGTAAAAATGGTAATTTTAAAAAA
1678 GTTTAGGGAC
Statistics
Matches: 180, Mismatches: 45, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
56 19 0.11
57 25 0.14
58 32 0.18
59 68 0.38
60 36 0.20
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.33
Consensus pattern (59 bp):
TTGGGGTCAAAAATGGAATTTTTAGAAGTTTGGAGGTAAAAATGGTAATTTTAAAAAAA
Found at i:1556 original size:28 final size:29
Alignment explanation
Indices: 1515--1672 Score: 164
Period size: 29 Copynumber: 5.5 Consensus size: 29
1505 ATCAAGGTAA
1515 AAAATGG-AATTTTTGGAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGAAGTTCGGGGGT
* **
1543 AAAATGGTAATTTTTAGAAAAT-GGGGGT
1 AAAATGGTAATTTTTGGAAGTTCGGGGGT
* *
1571 CAAAATGGT-ATTTTAGGAAGTTC-GAGGT
1 -AAAATGGTAATTTTTGGAAGTTCGGGGGT
** * *
1599 AAAATGGTAATTTTTGGAAAAATCGAGGTT
1 AAAATGGTAATTTTTGG-AAGTTCGGGGGT
*
1629 AAAAAT-GAAATTTTTGGAAGTTCGGGGGT
1 -AAAATGGTAATTTTTGGAAGTTCGGGGGT
1658 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
1673 AAAAAGTTTA
Statistics
Matches: 102, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
27 8 0.08
28 38 0.37
29 39 0.38
30 12 0.12
31 5 0.05
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAGTTCGGGGGT
Found at i:1625 original size:29 final size:29
Alignment explanation
Indices: 1481--1672 Score: 153
Period size: 29 Copynumber: 6.6 Consensus size: 29
1471 AAGTTTAGCT
*
1481 GTAAAAATGGTAATTTTTGGAAAAATCAAG
1 GTAAAAATGGTAATTTTTGG-AAAATCGAG
** *
1511 GTAAAAAATGG-AATTTTTGGAAGTTCGGGG
1 GT-AAAAATGGTAATTTTTGGAAAATC-GAG
* * *
1541 GT-AAAATGGTAATTTTTAGAAAATGGGG
1 GTAAAAATGGTAATTTTTGGAAAATCGAG
* * **
1569 GTCAAAATGGT-ATTTTAGGAAGTTCGAG
1 GTAAAAATGGTAATTTTTGGAAAATCGAG
1597 GT-AAAATGGTAATTTTTGGAAAAATCGAG
1 GTAAAAATGGTAATTTTTGG-AAAATCGAG
* ** *
1626 GTTAAAAAT-GAAATTTTTGGAAGTTCGGGG
1 G-TAAAAATGGTAATTTTTGGAAAATC-GAG
1656 GT-AAAATGGTAATTTTT
1 GTAAAAATGGTAATTTTT
1673 AAAAAGTTTA
Statistics
Matches: 130, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
27 8 0.06
28 37 0.28
29 44 0.34
30 28 0.22
31 13 0.10
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.33
Consensus pattern (29 bp):
GTAAAAATGGTAATTTTTGGAAAATCGAG
Found at i:2364 original size:3 final size:3
Alignment explanation
Indices: 2349--2430 Score: 58
Period size: 3 Copynumber: 26.0 Consensus size: 3
2339 AAATCGCTTG
* * * * *
2349 TTA TTA TT- GTA TTA TTTA ATA TTAA TTG TTA TTA TTA TTA GTA GTA
1 TTA TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
*
2395 GTA TTA TTTA TTTA TTA TTA TTAA TTA TTA TTA TTA
1 TTA TTA -TTA -TTA TTA TTA TT-A TTA TTA TTA TTA
2431 GTGCCCTATT
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
2 1 0.02
3 49 0.74
4 16 0.24
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:3132 original size:17 final size:17
Alignment explanation
Indices: 3109--3218 Score: 134
Period size: 17 Copynumber: 6.4 Consensus size: 17
3099 ACTTTTATTT
*
3109 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
3126 TTTTAAATTTAAATATAA
1 ATTTAAATTTAAA-ATAA
* *
3144 ATTTAAACTTAAATTAA
1 ATTTAAATTTAAAATAA
*
3161 ATTTAAATTTTAGAATAA
1 ATTTAAA-TTTAAAATAA
3179 ATTT-AATTTAAAATAA
1 ATTTAAATTTAAAATAA
3195 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
3212 ATTTAAA
1 ATTTAAA
3219 ATAAGTTGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
16 16 0.20
17 36 0.45
18 28 0.35
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.45
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:3136 original size:6 final size:6
Alignment explanation
Indices: 3109--3218 Score: 76
Period size: 6 Copynumber: 19.2 Consensus size: 6
3099 ACTTTTATTT
* * *
3109 ATTTAA ATTTATA A--TAA TTTTAA ATTTAA ATATAA ATTTAA ACTTAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
3156 A-TTAA ATTTAA ATTTTAGA A--TAA ATTT-A ATTTAA A-ATAA ATTT-A
1 ATTTAA ATTTAA A-TTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
3200 ATCTTAA A-ATAA ATTTAA A
1 AT-TTAA ATTTAA ATTTAA A
3219 ATAAGTTGAA
Statistics
Matches: 82, Mismatches: 9, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
4 3 0.04
5 25 0.30
6 44 0.54
7 8 0.10
8 2 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:3145 original size:29 final size:28
Alignment explanation
Indices: 3112--3199 Score: 73
Period size: 29 Copynumber: 3.3 Consensus size: 28
3102 TTTATTTATT
3112 TAAATTTATAATAATTTTAAATTTAAATA
1 TAAATTTATAATAA-TTTAAATTTAAATA
* *
3141 TAAA-TT-T-A-AACTTAAA-TTAAATT
1 TAAATTTATAATAATTTAAATTTAAATA
*
3164 TAAATTTTAGAATAAATTT-AATTTAAA-A
1 TAAA-TTTATAAT-AATTTAAATTTAAATA
3192 TAAATTTA
1 TAAATTTA
3200 ATCTTAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
23 10 0.21
24 5 0.11
25 4 0.09
26 1 0.02
27 6 0.13
28 8 0.17
29 13 0.28
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
TAAATTTATAATAATTTAAATTTAAATA
Found at i:3219 original size:11 final size:11
Alignment explanation
Indices: 3129--3222 Score: 57
Period size: 11 Copynumber: 8.3 Consensus size: 11
3119 ATAATAATTT
3129 TAAATTTAAATA
1 TAAATTTAAA-A
*
3141 TAAATTTAAACT
1 TAAATTTAAA-A
*
3153 TAAA-TTAAATT
1 TAAATTTAAA-A
*
3164 TAAATTTTAGAA
1 TAAA-TTTAAAA
**
3176 TAAATTTAATT
1 TAAATTTAAAA
* *
3187 TAAA-ATAAAT
1 TAAATTTAAAA
*
3197 TTAATCTTAAAA
1 TAAAT-TTAAAA
3209 TAAATTTAAAA
1 TAAATTTAAAA
3220 TAA
1 TAA
3223 GTTGAATTTC
Statistics
Matches: 64, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
10 7 0.11
11 27 0.42
12 26 0.41
13 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:3373 original size:31 final size:32
Alignment explanation
Indices: 3330--3398 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 32
3320 TTATTATAAA
*
3330 AAAAGTTGATTGTTTTATTTAACTAAACTTTT-
1 AAAA-TTGATTGTTTTATTAAACTAAACTTTTC
3362 AAAATTGATTGTTTTATTAAACTAAACTTTTC
1 AAAATTGATTGTTTTATTAAACTAAACTTTTC
3394 AAAAT
1 AAAAT
3399 CACCTTTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 26 0.74
32 9 0.26
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (32 bp):
AAAATTGATTGTTTTATTAAACTAAACTTTTC
Found at i:3786 original size:143 final size:143
Alignment explanation
Indices: 3528--3814 Score: 565
Period size: 143 Copynumber: 2.0 Consensus size: 143
3518 AAATTTCAAA
3528 TTTAAAAAGTTTGAGAAAATAGAAGGTTTAAATATATTAGAAGTCCTTACACTATTTTAAAATGA
1 TTTAAAAAGTTTGAGAAAATAGAAGGTTTAAATATATTAGAAGTCCTTACACTATTTTAAAATGA
3593 TTAAATTACACTAACAGTTACTCAACTTGATGCAACTGACAAAACAATCACTCTGATTTCAATTC
66 TTAAATTACACTAACAGTTACTCAACTTGATGCAACTGACAAAACAATCACTCTGATTTCAATTC
3658 AGTCACTCAGCTT
131 AGTCACTCAGCTT
3671 TTTAAAAAGTTTGAGAAAATAGAAGGTTTAAATATATTAGAAGTCCTTACACTATTTTAAAATGA
1 TTTAAAAAGTTTGAGAAAATAGAAGGTTTAAATATATTAGAAGTCCTTACACTATTTTAAAATGA
*
3736 TTAAATTACACTAACAGTTACTCAACTTGATGCAACTGACAAAACAATCACTTTGATTTCAATTC
66 TTAAATTACACTAACAGTTACTCAACTTGATGCAACTGACAAAACAATCACTCTGATTTCAATTC
3801 AGTCACTCAGCTT
131 AGTCACTCAGCTT
3814 T
1 T
3815 CGAAAAATAA
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 143 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (143 bp):
TTTAAAAAGTTTGAGAAAATAGAAGGTTTAAATATATTAGAAGTCCTTACACTATTTTAAAATGA
TTAAATTACACTAACAGTTACTCAACTTGATGCAACTGACAAAACAATCACTCTGATTTCAATTC
AGTCACTCAGCTT
Found at i:4162 original size:21 final size:20
Alignment explanation
Indices: 4129--4167 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4119 TCTCTGTCCC
*
4129 TTTTTTCTTCTTATCTCTTT
1 TTTTTTCTTCTTAACTCTTT
*
4149 TTTTTTTTTGCTTAACTCT
1 TTTTTTCTT-CTTAACTCT
4168 AATCGTCGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTTCTTCTTAACTCTTT
Found at i:4873 original size:123 final size:121
Alignment explanation
Indices: 4604--5040 Score: 388
Period size: 123 Copynumber: 3.6 Consensus size: 121
4594 GCTTGTAGTA
**
4604 GTGGCCAACAGTGAGGGTGGTGGTGAGGGAGCCAAGA-GGCATGAAG-AAAATGGT-AAAAAGCA
1 GTGGCCAACAACGAGGGTGGTGGTGAGGGAGCCAAGATGG-ATGAAGAAAAATGGTGAAAAAGC-
* * * *
4666 CCCTTTTTCTCTTTCTGTTTTTTTGTTTACTGTTGACGTATGAGATGGACATGTGAAG
64 CCCTTTTTCTCTTTCTGTTTTTGTATTTAATGGTGACGTATGAGATGGACATGTGAAG
* * * *
4724 GTGGCCAACAACGAGGGTGGTGGTGAGGGAACCCAGATGGATGAAGAAAAAGGGTGAAAAGGCCC
1 GTGGCCAACAACGAGGGTGGTGGTGAGGGAGCCAAGATGGATGAAGAAAAATGGTGAAAAAGCCC
** * * * *
4789 TCTTTTTCTCTTTCTGTTTTTGGTATTTAATGGTGGTGTCTGAGA-GAGGCTTGTGGAG
66 -CTTTTTCTCTTTCTGTTTTT-GTATTTAATGGTGACGTATGAGATG-GACATGTGAAG
* * *
4847 GTGGCCAACGACGAGGGTGGTGGTGAGAGAGTCAAGATGGATGAA-AAAAATGGTGAAAAAGCCC
1 GTGGCCAACAACGAGGGTGGTGGTGAGGGAGCCAAGATGGATGAAGAAAAATGGTGAAAAAGCCC
* * * * * * * * * * **
4911 C-CTTTCTCTTTTTG-GTTT-T-TTTAATGGTGGCATGTAAAAGGGACTTGTGGTG
66 CTTTTTCTCTTTCTGTTTTTGTATTTAATGGTGACGTATGAGATGGACATGTGAAG
* *** * * * * *
4963 GTGACCAATGGCGATGGTGGCGGTGAGGGAGTCAAGAGGGATGAAGAAAAATGGTGAAAAAACCC
1 GTGGCCAACAACGAGGGTGGTGGTGAGGGAGCCAAGATGGATGAAGAAAAATGGTG-AAAAAGCC
*
5028 CCTTTCTCTCTTT
65 CCTTTTTCTCTTT
5041 GTTTTTATTG
Statistics
Matches: 264, Mismatches: 43, Indels: 21
0.80 0.13 0.06
Matches are distributed among these distances:
116 62 0.23
117 12 0.05
118 9 0.03
119 11 0.04
120 50 0.19
121 12 0.05
122 44 0.17
123 64 0.24
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.28
Consensus pattern (121 bp):
GTGGCCAACAACGAGGGTGGTGGTGAGGGAGCCAAGATGGATGAAGAAAAATGGTGAAAAAGCCC
CTTTTTCTCTTTCTGTTTTTGTATTTAATGGTGACGTATGAGATGGACATGTGAAG
Found at i:4996 original size:116 final size:116
Alignment explanation
Indices: 4838--5046 Score: 312
Period size: 116 Copynumber: 1.8 Consensus size: 116
4828 CTGAGAGAGG
* * *
4838 CTTGTGGAGGTGGCCAACGACGAGGGTGGTGGTGAGAGAGTCAAGATGGATGAA-AAAAATGGTG
1 CTTGTGGAGGTGACCAACGACGAGGGTGGCGGTGAGAGAGTCAAGAGGGATGAAGAAAAATGGTG
* *
4902 AAAAAGCCCCCTTTCTCTTTTTGGTTTTTTTAATGGTGGCATGTAAAAGGGA
66 AAAAAACCCCCTTTCTCTCTTT-GTTTTTTTAATGGTGGCATGTAAAAGGGA
* * * * *
4954 CTTGTGGTGGTGACCAATGGCGATGGTGGCGGTGAGGGAGTCAAGAGGGATGAAGAAAAATGGTG
1 CTTGTGGAGGTGACCAACGACGAGGGTGGCGGTGAGAGAGTCAAGAGGGATGAAGAAAAATGGTG
5019 AAAAAACCCCCTTTCTCTCTTTGTTTTT
66 AAAAAACCCCCTTTCTCTCTTTGTTTTT
5047 ATTGTTTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 52 0.63
117 30 0.37
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (116 bp):
CTTGTGGAGGTGACCAACGACGAGGGTGGCGGTGAGAGAGTCAAGAGGGATGAAGAAAAATGGTG
AAAAAACCCCCTTTCTCTCTTTGTTTTTTTAATGGTGGCATGTAAAAGGGA
Found at i:5320 original size:91 final size:91
Alignment explanation
Indices: 5163--5345 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
5153 TTAAAGGGTG
*
5163 ATTAATTTGTCACTTTTCAATAACGTTAGTGACCGATTTGTTATTTTAGAAAGTTGAGTGACTGA
1 ATTAATTTGTCACTTTTCAATAACGTTAGTGACCGATTTGTTATTTTAGAAAGTTGAGTAACTGA
5228 ATTGAAATCAAAGTGACTGTTTTGCT
66 ATTGAAATCAAAGTGACTGTTTTGCT
*
5254 ATTAATTTGTCACTTTTCAATAACGTTAGTGACCGATTTGTTATTTTAGAAAGTTGAGTAATTGA
1 ATTAATTTGTCACTTTTCAATAACGTTAGTGACCGATTTGTTATTTTAGAAAGTTGAGTAACTGA
*
5319 ATTGAAATTAAAGTGACTGTTTTGCT
66 ATTGAAATCAAAGTGACTGTTTTGCT
5345 A
1 A
5346 GTTGCATCAA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.42
Consensus pattern (91 bp):
ATTAATTTGTCACTTTTCAATAACGTTAGTGACCGATTTGTTATTTTAGAAAGTTGAGTAACTGA
ATTGAAATCAAAGTGACTGTTTTGCT
Found at i:8780 original size:22 final size:22
Alignment explanation
Indices: 8752--8796 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
8742 TCAGATGTTA
8752 ACCTAAAAATTTCCACACGGAT
1 ACCTAAAAATTTCCACACGGAT
8774 ACCTAAAAATTTCCACACGGAT
1 ACCTAAAAATTTCCACACGGAT
8796 A
1 A
8797 TATATGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.22
Consensus pattern (22 bp):
ACCTAAAAATTTCCACACGGAT
Found at i:8952 original size:98 final size:98
Alignment explanation
Indices: 8677--8958 Score: 530
Period size: 98 Copynumber: 2.9 Consensus size: 98
8667 TCAGATGTTA
*
8677 ACCT-AAAATTTCCACACGGATATATATATACATCAATCCCTCTAAATAAGTTATATAATTTCCA
1 ACCTAAAAATTTCCACACGGATATATATGTACATCAATCCCTCTAAATAAGTTATATAATTTCCA
* *
8741 CTCAGATGTTAACCTAAAAATTTCCACACGGAT
66 CTCAGATGTTAACCTTATAATTTCCACACGGAT
8774 ACCTAAAAATTTCCACACGGATATATATGTACATCAATCCCTCTAAATAAGTTATATAATTTCCA
1 ACCTAAAAATTTCCACACGGATATATATGTACATCAATCCCTCTAAATAAGTTATATAATTTCCA
8839 CTCAGATGTTAACCTTATAATTTCCACACGGAT
66 CTCAGATGTTAACCTTATAATTTCCACACGGAT
8872 ACCTAAAAATTTCCACACGGATATATATGTACATCAATCCCTCTAAATAAGTTATATAATTTCCA
1 ACCTAAAAATTTCCACACGGATATATATGTACATCAATCCCTCTAAATAAGTTATATAATTTCCA
8937 CTCAGATGTTAACCTTATAATT
66 CTCAGATGTTAACCTTATAATT
8959 AGTCACATAT
Statistics
Matches: 181, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
97 4 0.02
98 177 0.98
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (98 bp):
ACCTAAAAATTTCCACACGGATATATATGTACATCAATCCCTCTAAATAAGTTATATAATTTCCA
CTCAGATGTTAACCTTATAATTTCCACACGGAT
Found at i:10686 original size:147 final size:147
Alignment explanation
Indices: 10452--10884 Score: 728
Period size: 147 Copynumber: 2.9 Consensus size: 147
10442 CCGCTTTGTT
* * *
10452 CATCGATCGCAAATCTCAGTAACCTCGTGAGATTGGGTTT-AGGGTATAACAATTTCAATGGTTC
1 CATCGATCGCAAATCTCAGTAACCTCGTGCGATTGGGTTTAATGG-AAAACAATTTCAATGGTTC
10516 AATCCCTCCATTTCATATATCCGGAGTTCCAAAACTTGCATATCTGGATTTGTCATGGAACCACC
65 AATCCCTCCATTTCATATATCCGGAGTTCCAAAACTTGCATATCTGGATTTGTCATGGAACCACC
10581 TTTCTGGATCCATTCCAC
130 TTTCTGGATCCATTCCAC
10599 CATCGATCGCAAATCTCAGTAACCTCGTGCGATTGGGTTTAATGGAAAACAATTTCAATGGTTCA
1 CATCGATCGCAAATCTCAGTAACCTCGTGCGATTGGGTTTAATGGAAAACAATTTCAATGGTTCA
10664 ATCCCTCCATTTCATATATCCGGAGTTCCAAAACTTGCATATCTGGATTTGTCAAT-GAACCACC
66 ATCCCTCCATTTCATATATCCGGAGTTCCAAAACTTGCATATCTGGATTTGTC-ATGGAACCACC
10728 TTTCTGGATCCATTCCAC
130 TTTCTGGATCCATTCCAC
* * **
10746 CATCGATCGCAAATCTCAGTAACCTCGTGCTATTGGATTTAATGGAAAACAATTTCAATGGTTTG
1 CATCGATCGCAAATCTCAGTAACCTCGTGCGATTGGGTTTAATGGAAAACAATTTCAATGGTTCA
* * *
10811 ATCCCTCCATTTCATAGATCTGGAGTTCCAAATCTTGCATATCTGGATTTGTCA-GAGAACCACC
66 ATCCCTCCATTTCATATATCCGGAGTTCCAAAACTTGCATATCTGGATTTGTCATG-GAACCACC
10875 TTTCTGGATC
130 TTTCTGGATC
10885 AACACCTTCT
Statistics
Matches: 272, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
146 1 0.00
147 266 0.98
148 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (147 bp):
CATCGATCGCAAATCTCAGTAACCTCGTGCGATTGGGTTTAATGGAAAACAATTTCAATGGTTCA
ATCCCTCCATTTCATATATCCGGAGTTCCAAAACTTGCATATCTGGATTTGTCATGGAACCACCT
TTCTGGATCCATTCCAC
Found at i:23453 original size:97 final size:98
Alignment explanation
Indices: 23215--23764 Score: 394
Period size: 99 Copynumber: 5.7 Consensus size: 98
23205 CGACAAGCCT
* * * ** * ** *
23215 TGTACCTTAGAAGAAG-GATGGGAAAGATTGATGCCACAACGGTGAATCTAGTATCATGGAA-AT
1 TGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATGGAAGAT
* ** *
23278 AAAGGGAAATGTTGA-GCTGCAACGGCGAACCC
66 AAAGGGAAAGGTTGAGGCCACAATGGCGAACCC
* * **
23310 TATA-CTTAAGAAGATGTGATGGGAAGGATTGAGGCCGCAACAACGAATCTAGTACCATGGAA-A
1 TGTACCTT-AGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATGGAAGA
* * *
23373 TAAAGGGAAAGGTTGAGGCCATAATGGTGAACCT
65 TAAAGGGAAAGGTTGAGGCCACAATGGCGAACCC
* * *
23407 TGTACCTTAGAAGA-GATGATGGGAAGGATTGAGGTCGTATTGACGAATCTAGTACCGT-GAAGA
1 TGTACCTTAGAAGATG-TGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATGGAAGA
* * *
23470 TATGAAGGGAAAGATTGAGACCGCAATGGCGAACCC
65 TA--AAGGGAAAGGTTGAGGCCACAATGGCGAACCC
* *
23506 TGTACCTTAGAAGATGTGATAGGAAGGATTGAGGCCGTAAT-AGCGAAT-TCGGTACCAT-GAAG
1 TGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGA-CGAATCT-AGTACCATGGAAG
* *
23568 ATATGAAGGGAAAGGTTGAGGCCATAATGGTGAA-CC
64 ATA--AAGGGAAAGGTTGAGGCCACAATGGCGAACCC
* * * * * * * * * * *
23604 TGGTACCTAAG-AGACGTTATGGGAATGATTGAAGTCGTAA-GGCGGATCTGGTACCATGAAAAT
1 T-GTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATG-GAAG
** * * * *
23667 ATAAAGGGGAAA-GTTGAGGCTGCAACGACAAACCT
64 ATAAA-GGGAAAGGTTGAGGCCACAATGGCGAACCC
* * ** * * * *
23702 TGTACCCTA-AAAACATGATGGGAAGGATTGAGGCCGCAACGATGAATCTAGAACCAT-GAAGAT
1 TGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATGGAAGAT
23765 TTACGGAGAA
Statistics
Matches: 361, Mismatches: 74, Indels: 39
0.76 0.16 0.08
Matches are distributed among these distances:
94 3 0.01
95 10 0.03
96 62 0.17
97 114 0.32
98 52 0.14
99 119 0.33
100 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.21
Consensus pattern (98 bp):
TGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATGGAAGAT
AAAGGGAAAGGTTGAGGCCACAATGGCGAACCC
Found at i:23486 original size:49 final size:48
Alignment explanation
Indices: 23319--23596 Score: 179
Period size: 50 Copynumber: 5.7 Consensus size: 48
23309 CTATACTTAA
* * * * **
23319 GAAGATGTGATGGGAAGGATTGAGGCCGCAACAACGAATCTAGTACCAT
1 GAAGATATGAAGGGAAAGATTGAGGCCGTAATGACGAATCT-GTACCAT
* * ** * *
23368 GGAA-ATA--AAGGGAAAGGTTGAGGCCATAATGGTGAACCTTGTACCTT
1 -GAAGATATGAAGGGAAAGATTGAGGCCGTAATGACGAATC-TGTACCAT
* * * * * *
23415 AGAAGAGATGATGGGAAGGATTGAGGTCGTATTGACGAATCTAGTACCGT
1 -GAAGATATGAAGGGAAAGATTGAGGCCGTAATGACGAATCT-GTACCAT
* * * * *
23465 GAAGATATGAAGGGAAAGATTGAGACCGCAATGGCGAACCCTGTACCTT
1 GAAGATATGAAGGGAAAGATTGAGGCCGTAATGACGAA-TCTGTACCAT
* * *
23514 AGAAGATGTGATA-GGAAGGATTGAGGCCGTAAT-AGCGAATTCGGTACCAT
1 -GAAGATATGA-AGGGAAAGATTGAGGCCGTAATGA-CGAA-TCTGTACCAT
* *
23564 GAAGATATGAAGGGAAAGGTTGAGGCCATAATG
1 GAAGATATGAAGGGAAAGATTGAGGCCGTAATG
23597 GTGAACCTGG
Statistics
Matches: 170, Mismatches: 47, Indels: 22
0.71 0.20 0.09
Matches are distributed among these distances:
47 30 0.18
48 4 0.02
49 65 0.38
50 70 0.41
51 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.21
Consensus pattern (48 bp):
GAAGATATGAAGGGAAAGATTGAGGCCGTAATGACGAATCTGTACCAT
Found at i:23514 original size:99 final size:98
Alignment explanation
Indices: 23215--23764 Score: 412
Period size: 97 Copynumber: 5.7 Consensus size: 98
23205 CGACAAGCCT
* * * ** * ** *
23215 TGTACCTTAGAAGAAG-GATGGGAAAGATTGATGCCACAACGGTGAATCTAGTATCATGGAA-AT
1 TGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCAT-GAAGAT
* *
23278 A--AAGGGAAATGTTGA-GCTGCAACGGCGAACCC
65 ATGAAGGGAAA-GTTGAGGCCGCAATGGCGAACCC
* * **
23310 TATA-CTTAAGAAGATGTGATGGGAAGGATTGAGGCCGCAACAACGAATCTAGTACCATGGAA-A
1 TGTACCTT-AGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCAT-GAAGA
** * *
23373 TA--AAGGGAAAGGTTGAGGCCATAATGGTGAACCT
64 TATGAAGGGAAA-GTTGAGGCCGCAATGGCGAACCC
* * *
23407 TGTACCTTAGAAGA-GATGATGGGAAGGATTGAGGTCGTATTGACGAATCTAGTACCGTGAAGAT
1 TGTACCTTAGAAGATG-TGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATGAAGAT
*
23471 ATGAAGGGAAAGATTGAGACCGCAATGGCGAACCC
65 ATGAAGGGAAAG-TTGAGGCCGCAATGGCGAACCC
* *
23506 TGTACCTTAGAAGATGTGATAGGAAGGATTGAGGCCGTAAT-AGCGAAT-TCGGTACCATGAAGA
1 TGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGA-CGAATCT-AGTACCATGAAGA
** *
23569 TATGAAGGGAAAGGTTGAGGCCATAATGGTGAA-CC
64 TATGAAGGGAAA-GTTGAGGCCGCAATGGCGAACCC
* * * * * * * * * *
23604 TGGTACCTAAG-AGACGTTATGGGAATGATTGAAGTCGTAA-GGCGGATCTGGTACCATGAAAAT
1 T-GTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATGAAGAT
* * * * * *
23667 ATAAAGGGGAAAGTTGAGGCTGCAACGACAAACCT
65 ATGAA-GGGAAAGTTGAGGCCGCAATGGCGAACCC
* * ** * * * *
23702 TGTACCCTA-AAAACATGATGGGAAGGATTGAGGCCGCAACGATGAATCTAGAACCATGAAGAT
1 TGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATGAAGAT
23765 TTACGGAGAA
Statistics
Matches: 364, Mismatches: 71, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
94 3 0.01
95 10 0.03
96 58 0.16
97 121 0.33
98 58 0.16
99 112 0.31
100 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.21
Consensus pattern (98 bp):
TGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAATGACGAATCTAGTACCATGAAGATA
TGAAGGGAAAGTTGAGGCCGCAATGGCGAACCC
Found at i:23609 original size:49 final size:50
Alignment explanation
Indices: 23375--23611 Score: 200
Period size: 49 Copynumber: 4.8 Consensus size: 50
23365 CATGGAAATA
* * * *
23375 AAGGGAAAGGTTGAGGCCATAATGGTGAACCTTGTACCTTAGAAGAGATG
1 AAGGGAAAGGTTGAGGCCGTAATGGCGAACCTGGTACCTTAGAAGATATG
* * * * * * *
23425 ATGGG-AAGGATTGAGGTCGTATTGACGAATCTAGTACCGT-GAAGATATG
1 AAGGGAAAGG-TTGAGGCCGTAATGGCGAACCTGGTACCTTAGAAGATATG
* * * *
23474 AAGGGAAAGATTGAGACCGCAATGGCGAACCCT-GTACCTTAGAAGATGTG
1 AAGGGAAAGGTTGAGGCCGTAATGGCGAA-CCTGGTACCTTAGAAGATATG
* * *
23524 ATA-GG-AAGGATTGAGGCCGTAATAGCGAA-TTCGGTACCAT-GAAGATATG
1 A-AGGGAAAGG-TTGAGGCCGTAATGGCGAACCT-GGTACCTTAGAAGATATG
* *
23573 AAGGGAAAGGTTGAGGCCATAATGGTGAACCTGGTACCT
1 AAGGGAAAGGTTGAGGCCGTAATGGCGAACCTGGTACCT
23612 AAGAGACGTT
Statistics
Matches: 144, Mismatches: 32, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
48 2 0.01
49 72 0.50
50 69 0.48
51 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.22
Consensus pattern (50 bp):
AAGGGAAAGGTTGAGGCCGTAATGGCGAACCTGGTACCTTAGAAGATATG
Found at i:24721 original size:122 final size:122
Alignment explanation
Indices: 24450--24890 Score: 464
Period size: 122 Copynumber: 3.6 Consensus size: 122
24440 GGTGAGGTAT
* * *
24450 AGAGAAGTGGGTCAAACAACAAAACATTCATCTTCCTGATGAGATATAGAGAAGTGGACCAAAAT
1 AGAGAAGTGGGTCAAACAACAAAGCATTCATCTTCTTGATGAGATATAGAGAAGTAGACC-AAAT
* * **
24515 -AATGAGGTAAAGCTCAAACATGAGTAAAACTTCAAAACCCTATCTTCTTGATGAGATAC
65 CAATGAAGTAGAGCTC-AATGTGAGTAAAACTTC-AAACCCTATCTTCTTGATGAGATAC
*
24574 AGAGAAGTGGGTCAAACAACAAAGCGA-TCATCTTCTTGATGAGATATAGAGAAGTATACCAAAT
1 AGAGAAGTGGGTCAAACAACAAAGC-ATTCATCTTCTTGATGAGATATAGAGAAGTAGACCAAAT
* * * *
24638 CAATGAAGTAGAGCTC-ATGTGAGTAAAACTTCGAAACCCCATCCTCTTGATAAAATAC
65 CAATGAAGTAGAGCTCAATGTGAGTAAAACTTC-AAACCCTATCTTCTTGATGAGATAC
* * * ** * * * *
24696 AGAGAAGTGGGTTAGACAACGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGCAGACCAAAAC
1 AGAGAAGTGGGTCAAACAACAAAGCATTCATCTTCTTGATGAGATATAGAGAAGTAGACCAAATC
** * * * *
24761 AATG-AG-ATGAAGCTCAATGCAAGTGAAACTTCAGACCCTATCTTCCTAATGAGATAC
66 AATGAAGTA-G-AGCTCAATGTGAGTAAAACTTCAAACCCTATCTTCTTGATGAGATAC
* * * * *
24818 AGAGAAGTGGGTCAAATAATGACA-CATTCATCTTCTTGATGAGATATAGAGAAATGGACCAAAA
1 AGAGAAGTGGGTCAAACAA-CAAAGCATTCATCTTCTTGATGAGATATAGAGAAGTAGACC-AAA
24882 T-AATGAAGT
64 TCAATGAAGT
24891 GAAACTCATT
Statistics
Matches: 261, Mismatches: 46, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
120 1 0.00
121 3 0.01
122 166 0.64
123 23 0.09
124 67 0.26
125 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (122 bp):
AGAGAAGTGGGTCAAACAACAAAGCATTCATCTTCTTGATGAGATATAGAGAAGTAGACCAAATC
AATGAAGTAGAGCTCAATGTGAGTAAAACTTCAAACCCTATCTTCTTGATGAGATAC
Found at i:30832 original size:88 final size:88
Alignment explanation
Indices: 30683--30861 Score: 340
Period size: 88 Copynumber: 2.0 Consensus size: 88
30673 AGATACTAAG
*
30683 TAAATAAATTGCGTAATTTAGATTGGTGGTGACAGATGAAATATATCGAATTAGAGTCAAATATA
1 TAAATAAATTGCATAATTTAGATTGGTGGTGACAGATGAAATATATCGAATTAGAGTCAAATATA
*
30748 ATATGCGAATCCATAGTACGAGT
66 ATAGGCGAATCCATAGTACGAGT
30771 TAAATAAATTGCATAATTTAGATTGGTGGTGACAGATGAAATATATCGAATTAGAGTCAAATATA
1 TAAATAAATTGCATAATTTAGATTGGTGGTGACAGATGAAATATATCGAATTAGAGTCAAATATA
30836 ATAGGCGAATCCATAGTACGAGT
66 ATAGGCGAATCCATAGTACGAGT
30859 TAA
1 TAA
30862 TATGATAATA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (88 bp):
TAAATAAATTGCATAATTTAGATTGGTGGTGACAGATGAAATATATCGAATTAGAGTCAAATATA
ATAGGCGAATCCATAGTACGAGT
Found at i:31690 original size:13 final size:13
Alignment explanation
Indices: 31672--31701 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
31662 TGGGCTATTC
31672 CACATCGCTTGGG
1 CACATCGCTTGGG
31685 CACATCGCTTGGG
1 CACATCGCTTGGG
31698 CACA
1 CACA
31702 CCACTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (13 bp):
CACATCGCTTGGG
Found at i:32504 original size:41 final size:41
Alignment explanation
Indices: 32447--32525 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
32437 GTTTAATTCA
* *
32447 GATTGATAGTGACATATGAAATCTAGGTGGATTCTTTCCTG
1 GATTGATAATGACATATGAAATCTAGGTGAATTCTTTCCTG
*
32488 GATTGATAATGACATATGAAATCTAGGTGAATTTTTTC
1 GATTGATAATGACATATGAAATCTAGGTGAATTCTTTC
32526 TTATGTATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (41 bp):
GATTGATAATGACATATGAAATCTAGGTGAATTCTTTCCTG
Found at i:32898 original size:22 final size:22
Alignment explanation
Indices: 32866--32909 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32856 TTATGACAAG
**
32866 AAAACTCAAATTTCAAATTAAA
1 AAAACTCAAATACCAAATTAAA
*
32888 AAAACTTAAATACCAAATTAAA
1 AAAACTCAAATACCAAATTAAA
32910 TATTGAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAACTCAAATACCAAATTAAA
Found at i:34436 original size:29 final size:29
Alignment explanation
Indices: 34376--34439 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
34366 TTAATAACAT
* *
34376 AATAAAAATATAATTATAGTATTAAATAA
1 AATAAAAATATAATCATAGTATAAAATAA
* *
34405 AATAACAATATAATCATAGTA-AAAATGGA
1 AATAAAAATATAATCATAGTATAAAAT-AA
34434 AATAAA
1 AATAAA
34440 TATTACTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (29 bp):
AATAAAAATATAATCATAGTATAAAATAA
Found at i:35869 original size:49 final size:48
Alignment explanation
Indices: 35809--36636 Score: 376
Period size: 49 Copynumber: 17.1 Consensus size: 48
35799 CCTATTTGAT
* * *
35809 TTTAAGGTGTTAGATCCGTCGTCGCGACTTTAATCTTTCCCTCTTCGA
1 TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
* * * ** * *
35857 TTTAAGGGTGTTAGGTCTGCCGTT-ATAGCTTCAACCTATCCCTCTTCAA
1 TTTAA-GGTGTTAGATCCGTCGTTGCGA-CTTCAATCTATCCCTCTTCGA
* ** * * *
35906 TTTTAAGGTGTAAGATCAATCGTTGTGACTTCAATCTTTCCCTTTTCGA
1 -TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
** * * * * * *
35955 TTTTTGGGTGTTATG-TTCG-CTATTGCGATTTCAACCTATCCCTCTTTAGT
1 -TTTAAGGTGTTA-GATCCGTC-GTTGCGACTTCAATCTATCCCTC-TTCGA
* * * * *
36005 TTTAAGGTGTTAGATCCGTCGTCGCAACTTTAATCTTTCCCTCTTTGA
1 TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
* * ** * * *
36053 TTTTAAGGTGTTAGGTCCGCCGTT-ATAGCTTCAACCTATCCGTCTTCAA
1 -TTTAAGGTGTTAGATCCGTCGTTGCGA-CTTCAATCTATCCCTCTTCGA
* ** * * * *
36102 TTTTAAGGTGTAAGATCAATCGTTACGACTTCAATCTCTCCCTTTTCAA
1 -TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
** * * * * * *
36151 TTTTTGGGTGTTAGGTCCG-CTATTGCGGCTTCAACCTATCCCTCTTTAGT
1 -TTTAAGGTGTTAGATCCGTC-GTTGCGACTTCAATCTATCCCTC-TTCGA
* * * *
36201 TTTAAGGTGTAAGATCCGCCGTTGCGACTTCAATCTTTCCCTCTTCAA
1 TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
* * * *
36249 TTTTAAGGTGTTAGATCCGCCATTGAGACTT---T-TA----TCTTCAA
1 -TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
* * * * ** *
36290 TTTTAAGGTGTTAGATCCGCCATTGAGAATTTTATCTATCCTTCTTCGAA
1 -TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCG-A
* * * * *
36340 TTTAGGGTTTTA-AGTCCATCGTTGCTACTTCAACCTATCCCTCTTCGA
1 TTTAAGGTGTTAGA-TCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
* * ** * * * *
36388 TTGTAAGGTGTAAGATCCATAATTGTGACTTTAATCTTTCCCTTTTCGA
1 TT-TAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
** * *** * * * *
36437 TTTTTGGGTGTTAGGTCTACCGTTACAACTTCAACCTATCCCTCTTCAGT
1 -TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTC-GA
* * * *
36487 TTTAAGGTGTAAGAT-C-TACTGTTGCGGCTTCAATCTTTCCCTCTTTGA
1 TTTAAGGTGTTAGATCCGT-C-GTTGCGACTTCAATCTATCCCTCTTCGA
* ** * * * * *
36535 TTTTAGGGTGTTAGATTTGACATTGCGGCTTCAATCTATCCCTTTTTGA
1 -TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
* * *
36584 TTTTAAGGTTTTAGATTCGTCATTGCGACTTCAA-CATATCCCTCTTCGA
1 -TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATC-TATCCCTCTTCGA
36633 TTTA
1 TTTA
36637 TGTTTGGTTT
Statistics
Matches: 577, Mismatches: 167, Indels: 72
0.71 0.20 0.09
Matches are distributed among these distances:
41 37 0.06
44 1 0.00
45 3 0.01
46 1 0.00
48 26 0.05
49 488 0.85
50 21 0.04
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (48 bp):
TTTAAGGTGTTAGATCCGTCGTTGCGACTTCAATCTATCCCTCTTCGA
Found at i:35936 original size:98 final size:98
Alignment explanation
Indices: 35807--36548 Score: 648
Period size: 98 Copynumber: 7.7 Consensus size: 98
35797 TTCCTATTTG
* * * * *
35807 ATTTTAAGGTGTTAGATCCGTCGTCGCGACTTTAATCTTTCCCTCTTCGATTTAAGGGTGTTAGG
1 ATTTTAAGGTGTAAGATCCATCGTTGCGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGG
*
35872 TCTGCCGTTATAGCTTCAACCTATCCCTCTTCA
66 TCCGCCGTTATAGCTTCAACCTATCCCTCTTCA
* * * * *
35905 ATTTTAAGGTGTAAGATCAATCGTTGTGACTTCAATCTTTCCCTTTTCGATTTTTGGGTGTTATG
1 ATTTTAAGGTGTAAGATCCATCGTTGCGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGG
* * *
35970 TTCG-C--TATTGCGATTTCAACCTATCCCTCTTTA
66 TCCGCCGTTATAGC---TTCAACCTATCCCTCTTCA
* * * * * * * *
36003 GTTTTAAGGTGTTAGATCCGTCGTCGCAACTTTAATCTTTCCCTCTTTGATTTTAAGGTGTTAGG
1 ATTTTAAGGTGTAAGATCCATCGTTGCGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGG
*
36068 TCCGCCGTTATAGCTTCAACCTATCCGTCTTCA
66 TCCGCCGTTATAGCTTCAACCTATCCCTCTTCA
* * * * * *
36101 ATTTTAAGGTGTAAGATCAATCGTTACGACTTCAATCTCTCCCTTTTCAATTTTTGGGTGTTAGG
1 ATTTTAAGGTGTAAGATCCATCGTTGCGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGG
** *** *
36166 TCCGCTATTGCGGCTTCAACCTATCCCTCTTTA
66 TCCGCCGTTATAGCTTCAACCTATCCCTCTTCA
* ** * * *
36199 GTTTTAAGGTGTAAGATCCGCCGTTGCGACTTCAATCTTTCCCTCTTCAATTTTAAGGTGTTAGA
1 ATTTTAAGGTGTAAGATCCATCGTTGCGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGG
* * *
36264 TCCGCCATT-GAGACTT-----T-T--ATCTTCA
66 TCCGCCGTTATAG-CTTCAACCTATCCCTCTTCA
* ** * * * ** * * * * *
36289 ATTTTAAGGTGTTAGATCCGCCATTGAGAATTTTATCTATCCTTCTTCGAATTTAGGGTTTTAAG
1 ATTTTAAGGTGTAAGATCCATCGTTGCGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGG
** * *
36354 TCCATCGTTGCTA-CTTCAACCTATCCCTCTTCG
66 TCCGCCGTT-ATAGCTTCAACCTATCCCTCTTCA
* ** * * * *
36387 ATTGTAAGGTGTAAGATCCATAATTGTGACTTTAATCTTTCCCTTTTCGATTTTTGGGTGTTAGG
1 ATTTTAAGGTGTAAGATCCATCGTTGCGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGG
** * *
36452 TCTACCGTTACAACTTCAACCTATCCCTCTTCA
66 TCCGCCGTTATAGCTTCAACCTATCCCTCTTCA
* * * *
36485 GTTTTAAGGTGTAAGATCTA-CTGTTGCGGCTTCAATCTTTCCCTCTTTGATTTTAGGGTGTTAG
1 ATTTTAAGGTGTAAGATCCATC-GTTGCGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAG
36549 ATTTGACATT
Statistics
Matches: 506, Mismatches: 119, Indels: 38
0.76 0.18 0.06
Matches are distributed among these distances:
90 64 0.13
92 2 0.00
93 1 0.00
95 6 0.01
96 1 0.00
97 3 0.01
98 423 0.84
99 1 0.00
101 5 0.01
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (98 bp):
ATTTTAAGGTGTAAGATCCATCGTTGCGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGG
TCCGCCGTTATAGCTTCAACCTATCCCTCTTCA
Found at i:36146 original size:196 final size:196
Alignment explanation
Indices: 35808--36635 Score: 778
Period size: 196 Copynumber: 4.3 Consensus size: 196
35798 TCCTATTTGA
35808 TTTTAAGGTGTTAGATCCGTCGTCGCGACTTTAATCTTTCCCTCTTCGA-TTTAAGGGTGTTAGG
1 TTTTAAGGTGTTAGATCCGTCGTCGCGACTTTAATCTTTCCCTCTTCGATTTTAA-GGTGTTAGG
* **
35872 TCTGCCGTTATAGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCAATCGTTGTGACTT
65 TCCGCCGTTATAGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCAATCGTTACGACTT
* * * * *
35937 CAATCTTTCCCTTTTCGATTTTTGGGTGTTATGTTCGCTATTGCGATTTCAACCTATCCCTCTTT
130 CAATCTCTCCCTTTTCAATTTTTGGGTGTTAGGTCCGCTATTGCGACTTCAACCTATCCCTCTTT
36002 AG
195 AG
* *
36004 TTTTAAGGTGTTAGATCCGTCGTCGCAACTTTAATCTTTCCCTCTTTGATTTTAAGGTGTTAGGT
1 TTTTAAGGTGTTAGATCCGTCGTCGCGACTTTAATCTTTCCCTCTTCGATTTTAAGGTGTTAGGT
*
36069 CCGCCGTTATAGCTTCAACCTATCCGTCTTCAATTTTAAGGTGTAAGATCAATCGTTACGACTTC
66 CCGCCGTTATAGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCAATCGTTACGACTTC
*
36134 AATCTCTCCCTTTTCAATTTTTGGGTGTTAGGTCCGCTATTGCGGCTTCAACCTATCCCTCTTTA
131 AATCTCTCCCTTTTCAATTTTTGGGTGTTAGGTCCGCTATTGCGACTTCAACCTATCCCTCTTTA
36199 G
196 G
* * * * * *
36200 TTTTAAGGTGTAAGATCCGCCGTTGCGACTTCAATCTTTCCCTCTTCAATTTTAAGGTGTTAGAT
1 TTTTAAGGTGTTAGATCCGTCGTCGCGACTTTAATCTTTCCCTCTTCGATTTTAAGGTGTTAGGT
* * * * *** * *
36265 CCGCCATT-GAGACTT-----T-T--ATCTTCAATTTTAAGGTGTTAGATCCGCCATTGA-GAAT
66 CCGCCGTTATAG-CTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCAATCGTT-ACGACT
** * * * * * * *
36320 TTTATCTAT-CCTTCTTCGAA-TTTAGGGTTTTAAGTCC-ATCGTTGCTACTTCAACCTATCCCT
129 TCAATCTCTCCCTT-TTC-AATTTTTGGGTGTTAGGTCCGCT-ATTGCGACTTCAACCTATCCCT
*
36382 C-TTCG
191 CTTTAG
* * * ** * * * **
36387 ATTGTAAGGTGTAAGATCCATAATTGTGACTTTAATCTTTCCCTTTTCGATTTTTGGGTGTTAGG
1 -TTTTAAGGTGTTAGATCCGTCGTCGCGACTTTAATCTTTCCCTCTTCGATTTTAAGGTGTTAGG
** * * * * * *
36452 TCTACCGTTACAACTTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGATCTA-CTGTTGCGGCT
65 TCCGCCGTTATAGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCAATC-GTTACGACT
* * * * ** * *
36516 TCAATCTTTCCCTCTTT-GATTTTAGGGTGTTAGATTTGAC-ATTGCGGCTTCAATCTATCCCT-
129 TCAATCTCTCCCT-TTTCAATTTTTGGGTGTTAGGTCCG-CTATTGCGACTTCAACCTATCCCTC
*
36578 TTTTG
192 TTTAG
* * * * * *
36583 ATTTTAAGGTTTTAGATTCGTCATTGCGACTTCAA-CATATCCCTCTTCGATTT
1 -TTTTAAGGTGTTAGATCCGTCGTCGCGACTTTAATC-TTTCCCTCTTCGATTT
36636 ATGTTTGGTT
Statistics
Matches: 516, Mismatches: 91, Indels: 50
0.79 0.14 0.08
Matches are distributed among these distances:
187 8 0.02
188 133 0.26
189 4 0.01
190 1 0.00
191 1 0.00
193 1 0.00
194 1 0.00
195 5 0.01
196 351 0.68
197 10 0.02
198 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (196 bp):
TTTTAAGGTGTTAGATCCGTCGTCGCGACTTTAATCTTTCCCTCTTCGATTTTAAGGTGTTAGGT
CCGCCGTTATAGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCAATCGTTACGACTTC
AATCTCTCCCTTTTCAATTTTTGGGTGTTAGGTCCGCTATTGCGACTTCAACCTATCCCTCTTTA
G
Found at i:36299 original size:41 final size:41
Alignment explanation
Indices: 36242--36326 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
36232 AATCTTTCCC
*
36242 TCTTCAATTTTAAGGTGTTAGATCCGCCATTGAGACTTTTA
1 TCTTCAATTTTAAGGTGTTAGATCCGCCATTGAGAATTTTA
36283 TCTTCAATTTTAAGGTGTTAGATCCGCCATTGAGAATTTTA
1 TCTTCAATTTTAAGGTGTTAGATCCGCCATTGAGAATTTTA
36324 TCT
1 TCT
36327 ATCCTTCTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (41 bp):
TCTTCAATTTTAAGGTGTTAGATCCGCCATTGAGAATTTTA
Found at i:37745 original size:13 final size:12
Alignment explanation
Indices: 37726--37769 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
37716 CCGACCCCTC
*
37726 CTTTTTTGTTTT
1 CTTTTTTTTTTT
*
37738 CTTTTTTTTTTC
1 CTTTTTTTTTTT
* *
37750 CCTTTTTTCTTT
1 CTTTTTTTTTTT
37762 CTTTTTTT
1 CTTTTTTT
37770 GCTAGTTTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:45202 original size:29 final size:29
Alignment explanation
Indices: 45167--45241 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
45157 AATTAATAAC
*
45167 ACAATAAAAATATAATTATAGTATTAAATA
1 ACAATAAAAATATAATTATAGTA-AAAATA
* *
45197 A-AATAACAATATAATCATAGTAAAAATA
1 ACAATAAAAATATAATTATAGTAAAAATA
*
45225 ACAATAAATAT-TAATTA
1 ACAATAAAAATATAATTA
45242 ATTAATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
28 11 0.29
29 26 0.68
30 1 0.03
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (29 bp):
ACAATAAAAATATAATTATAGTAAAAATA
Found at i:45515 original size:10 final size:10
Alignment explanation
Indices: 45500--45524 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45490 ACAATAAAAG
45500 AGATAATAAA
1 AGATAATAAA
45510 AGATAATAAA
1 AGATAATAAA
45520 AGATA
1 AGATA
45525 TAACAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (10 bp):
AGATAATAAA
Found at i:45665 original size:15 final size:15
Alignment explanation
Indices: 45631--45672 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
45621 ATTAGACATG
*
45631 AAAATAAAT-GACAA
1 AAAATAAATAAACAA
45645 ATAAATAAATAAACAA
1 A-AAATAAATAAACAA
*
45661 AAAATCAATAAA
1 AAAATAAATAAA
45673 TTAAATGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:45869 original size:10 final size:10
Alignment explanation
Indices: 45854--45883 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
45844 TTTAGTTTCG
45854 AAAGAAGAAA
1 AAAGAAGAAA
45864 AAAGAAGAAA
1 AAAGAAGAAA
45874 AAAGAAGAAA
1 AAAGAAGAAA
45884 TACAAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAA
Found at i:60156 original size:10 final size:9
Alignment explanation
Indices: 60122--60155 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
60112 AAAGGAGGTC
60122 AAAAAAAGA
1 AAAAAAAGA
60131 AAAGAAAAGA
1 AAA-AAAAGA
60141 AAAAAGAAGA
1 AAAAA-AAGA
60151 AAAAA
1 AAAAA
60156 GCCAAGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:61658 original size:16 final size:16
Alignment explanation
Indices: 61646--61700 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 16
61636 AAAAAAGGAG
61646 AAAGAAAAGAAAGAAA
1 AAAGAAAAGAAAGAAA
* *
61662 AAATAAAAGAAAAAGCAA
1 AAAGAAAAG--AAAGAAA
61680 AAAG-AAA-AAAG-AA
1 AAAGAAAAGAAAGAAA
61693 AAAGAAAA
1 AAAGAAAA
61701 TGAGAGGTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 6 0.18
14 7 0.21
16 8 0.24
17 3 0.09
18 9 0.27
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAGAAAAGAAAGAAA
Found at i:61675 original size:13 final size:12
Alignment explanation
Indices: 61644--61700 Score: 60
Period size: 13 Copynumber: 4.5 Consensus size: 12
61634 CTAAAAAAGG
*
61644 AGAAAGAAAAGAA
1 AGAAA-AAAAAAA
*
61657 AGAAAAAATAAA
1 AGAAAAAAAAAA
*
61669 AGAAAAAGCAAAA
1 AGAAAAA-AAAAA
61682 AGAAAAAAGAAAA
1 AGAAAAAA-AAAA
61695 AGAAAA
1 AGAAAA
61701 TGAGAGGTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 12 0.32
13 25 0.68
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (12 bp):
AGAAAAAAAAAA
Found at i:61681 original size:7 final size:6
Alignment explanation
Indices: 61655--61700 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
61645 GAAAGAAAAG
61655 AAAGAA AAA-ATA AAAGAA AAAGCAA AAAGAAA AAAGAA AAAGAA AA
1 AAAGAA AAAGA-A AAAGAA AAAG-AA AAAG-AA AAAGAA AAAGAA AA
61701 TGAGAGGTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
5 1 0.03
6 22 0.61
7 13 0.36
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:62822 original size:50 final size:50
Alignment explanation
Indices: 62727--62891 Score: 138
Period size: 50 Copynumber: 3.3 Consensus size: 50
62717 CCAAATATAT
* * * * ** *
62727 TACACCTAAAGCTGTAGAGGGGTAGATTGAAGTCGCAAGGGCGAATCTTA
1 TACACCTAAAGCTGTAAAGGAGCAGATTGAAGCCGCAAGAACGAATCTCA
* *
62777 TAC-CTCTAAAGCTGTAAAGGAGCAGATTGAAGCCGTAATAACGAATCTCA
1 TACAC-CTAAAGCTGTAAAGGAGCAGATTGAAGCCGCAAGAACGAATCTCA
* * * * **
62827 TACACCTAAAGCTATAGAAAG-GCATATTGAAGCTGCAA-AGGTGAATCTCA
1 TACACCTAAAGCTGTA-AAGGAGCAGATTGAAGCCGCAAGA-ACGAATCTCA
*
62877 TACCCCTAAAGCTGT
1 TACACCTAAAGCTGT
62892 GGGCCATAAG
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
49 2 0.02
50 87 0.94
51 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (50 bp):
TACACCTAAAGCTGTAAAGGAGCAGATTGAAGCCGCAAGAACGAATCTCA
Found at i:62978 original size:49 final size:49
Alignment explanation
Indices: 62899--63415 Score: 527
Period size: 49 Copynumber: 10.5 Consensus size: 49
62889 TGTGGGCCAT
* *
62899 AAGGATGAATCTAATACACCTAGAGATGTGGAGGGAAAGATTAAAGCCGCA
1 AAGG-TGAATCTTATAC-CCTAGAGATGTGGAGGGAAAGATTGAAGCCGCA
* * * * *
62950 AAGGCGAATCTCATACCCTAGAGATGTGGAAGGAAAGATTTAAACCGCA
1 AAGGTGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCA
* * * *
62999 AAGGCGAATCATATACCCTAGAGATGTGGAGGGAAAGATTGAAGTCGTA
1 AAGGTGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCA
* *
63048 AAGATGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCTGCA
1 AAGGTGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCA
* * * * *
63097 AAGGCGAATCTTATACCCTAGTGATGTGAAGGGAAAGATTGAAGTCGTA
1 AAGGTGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCA
** * * *
63146 AAGGCAAATCTTATACCCTAGTGATGCGGAGGGAAAGATAGAAGCCGCA
1 AAGGTGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCA
* *
63195 AAGGTGAATCTTATACCCTAGTGATGTGAAGGGAAAGGA-TGAAGCCGCA
1 AAGGTGAATCTTATACCCTAGAGATGTGGAGGGAAA-GATTGAAGCCGCA
* * ** * * * **
63244 AAAGTGAATCTTATACCCTAGTGACATGAAGGAAAAAATTGAAGCTACA
1 AAGGTGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCA
** * * * *
63293 AAGGTGAATCTTATACTTTAAAGACGTGGAGGGAAAGATTGAAGTCGTA
1 AAGGTGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCA
** * * * *
63342 AAGGTGAATCTTATACTTTAAAGATGAATAG-GGGCAA-ATTGAAGCCGTA
1 AAGGTGAATCTTATACCCTAGAGATG--TGGAGGGAAAGATTGAAGCCGCA
** *
63391 AAGGCAAATCTTATACCCTAAAGAT
1 AAGGTGAATCTTATACCCTAGAGAT
63416 AAAGAAGGGT
Statistics
Matches: 398, Mismatches: 64, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
48 1 0.00
49 374 0.94
50 17 0.04
51 6 0.02
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (49 bp):
AAGGTGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGCCGCA
Found at i:63950 original size:21 final size:20
Alignment explanation
Indices: 63909--63968 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 20
63899 TGCAAGTAAT
63909 AAAGAAGAAA--ACAAAGAA
1 AAAGAAGAAATGACAAAGAA
63927 AAAGAAGAAATGACAAAGAGA
1 AAAGAAGAAATGACAAAGA-A
* *
63948 AAAAAACAAATGA-AAA-AA
1 AAAGAAGAAATGACAAAGAA
63966 AAA
1 AAA
63969 ACAAAAGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 14 0.38
19 1 0.03
20 10 0.27
21 12 0.32
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAGAAGAAATGACAAAGAA
Found at i:65962 original size:30 final size:30
Alignment explanation
Indices: 65922--66110 Score: 159
Period size: 30 Copynumber: 6.4 Consensus size: 30
65912 TTTTTGGAAG
*
65922 AGGGTTAAAATGTGATTTTTGAGAAATTCA
1 AGGGTAAAAATGTGATTTTTGAGAAATTCA
* * *
65952 AGGGAAAAAATG-GAATTTTTGGGAAGTTC-
1 AGGGTAAAAATGTG-ATTTTTGAGAAATTCA
* * **
65981 GGGGTTAAAATGTGATTTTTGAGAAATTTG
1 AGGGTAAAAATGTGATTTTTGAGAAATTCA
* * * * *
66011 AGGGTAAAAATATAATTTCTAAGAAGTT-A
1 AGGGTAAAAATGTGATTTTTGAGAAATTCA
* *
66040 AGGGTTAAAATGTGATTTTTGAGAAATTTA
1 AGGGTAAAAATGTGATTTTTGAGAAATTCA
* * * *
66070 GGGGTAACAATGTAATTTTTGAGAAGTTCA
1 AGGGTAAAAATGTGATTTTTGAGAAATTCA
* *
66100 GGGGTCAAAAT
1 AGGGTAAAAAT
66111 ATGGGTTTTA
Statistics
Matches: 123, Mismatches: 32, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
29 44 0.36
30 79 0.64
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
AGGGTAAAAATGTGATTTTTGAGAAATTCA
Found at i:65996 original size:59 final size:59
Alignment explanation
Indices: 65923--66110 Score: 250
Period size: 59 Copynumber: 3.2 Consensus size: 59
65913 TTTTGGAAGA
* * * *
65923 GGGTTAAAATGTGATTTTTGAGAAATTCAAGGGAAAAAATGGAATTTTTGGGAAGTTCG
1 GGGTTAAAATGTGATTTTTGAGAAATTTAAGGGTAAAAATGTAATTTTTGAGAAGTTCG
* * * * **
65982 GGGTTAAAATGTGATTTTTGAGAAATTTGAGGGTAAAAATATAATTTCTAAGAAGTTAA
1 GGGTTAAAATGTGATTTTTGAGAAATTTAAGGGTAAAAATGTAATTTTTGAGAAGTTCG
* *
66041 GGGTTAAAATGTGATTTTTGAGAAATTTAGGGGTAACAATGTAATTTTTGAGAAGTTCAG
1 GGGTTAAAATGTGATTTTTGAGAAATTTAAGGGTAAAAATGTAATTTTTGAGAAGTTC-G
*
66101 GGGTCAAAAT
1 GGGTTAAAAT
66111 ATGGGTTTTA
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
59 100 0.92
60 9 0.08
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (59 bp):
GGGTTAAAATGTGATTTTTGAGAAATTTAAGGGTAAAAATGTAATTTTTGAGAAGTTCG
Found at i:67713 original size:17 final size:17
Alignment explanation
Indices: 67691--67723 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
67681 TTTTTAATTA
67691 AATTTAAATTCAAAAAG
1 AATTTAAATTCAAAAAG
*
67708 AATTTAAATTTAAAAA
1 AATTTAAATTCAAAAA
67724 TTGGGTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
AATTTAAATTCAAAAAG
Found at i:67781 original size:21 final size:21
Alignment explanation
Indices: 67757--67799 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
67747 TTGGGCCCGG
67757 TCAAAATTAGGTTCCAACAGC
1 TCAAAATTAGGTTCCAACAGC
*
67778 TCAAAATTGGGTTCCAACAGC
1 TCAAAATTAGGTTCCAACAGC
67799 T
1 T
67800 ACCCCTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (21 bp):
TCAAAATTAGGTTCCAACAGC
Found at i:68426 original size:172 final size:172
Alignment explanation
Indices: 68102--68645 Score: 705
Period size: 172 Copynumber: 3.1 Consensus size: 172
68092 CTCTCTGTCT
* * * ** * * *
68102 ACTTCTTTATATCTCATCAGGAAGATGACCGCTTTATTGCTTCAACCTACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGA-CTTCTTCTCAGTATCTCAT
* * * * *
68167 CAGGAAGATAGGGGTTTGAAGCTTCACTCATATCTGAA-CTTTGCTTCACTTGATTTGGTCTACT
65 TAGGAAGCT-GGGGTTTGAAGTTTCACTCACAT-T-AAGCTTTGTTTCACTTGATTTGGTCTACT
* * * *
68231 TCTCTGTATCTCATCAAGAAGATGACCACCTTATTTGTTTTAACCC
127 TCTCTGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTTAATCC
68277 ACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGACTTGCTTCTCAGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGACTT-CTTCTCAGTATCTCAT
* * * *
68342 TAGGAAGCTGGGGTTTTAAGTTTTAATCACATTAAGCTTTGTTTCA-TTAATTTGGTCTACTTCT
65 TAGGAAGCTGGGGTTTGAAGTTTCACTCACATTAAGCTTTGTTTCACTTGATTTGGTCTACTTCT
* **
68406 CTGTATCTCATCAGGAAGATGATCGCCTCATTTGTTTTTGTCC
130 CTGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTTAATCC
*
68449 ACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTACTTCGACCTTCTTCTCAGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGA-CTTCTTCTCAGTATCTCAT
* ** * * * * * * *
68514 TAGGAAGCTTGAATTCGAAGTTTCGCCCACATTGAGATTTGTTCCATTTGATTTGGTCTACTTCT
65 TAGGAAGCTGGGGTTTGAAGTTTCACTCACATTAAGCTTTGTTTCACTTGATTTGGTCTACTTCT
68579 CTGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTTAATCC
130 CTGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTTAATCC
68622 ACTTCTCTGTATCTCATCAGGAAG
1 ACTTCTCTGTATCTCATCAGGAAG
68646 ACGAATTTGG
Statistics
Matches: 324, Mismatches: 41, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
172 149 0.46
173 94 0.29
174 20 0.06
175 61 0.19
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (172 bp):
ACTTCTCTGTATCTCATCAGGAAGGTGACCATTTTATTGCTTCGACTTCTTCTCAGTATCTCATT
AGGAAGCTGGGGTTTGAAGTTTCACTCACATTAAGCTTTGTTTCACTTGATTTGGTCTACTTCTC
TGTATCTCATCAGGAAGATGACCGCCTCATTTGTTTTAATCC
Found at i:69820 original size:43 final size:41
Alignment explanation
Indices: 69750--69855 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 41
69740 AATTTGAGTC
* * *
69750 GCCCTTTGCGGGTTTTCAAC-CAAAACCTTTTTGGTCTCAAGAT
1 GCCCTTTACGGGTTTTCATCTC-GAACCTTTTT--TCTCAAGAT
* * **
69793 GCTCTTTACGGGTTTTCATCTCGAACCTTTTTTTTTTAGAT
1 GCCCTTTACGGGTTTTCATCTCGAACCTTTTTTCTCAAGAT
*
69834 GCCCTTTTCGGGTTTTCATCTC
1 GCCCTTTACGGGTTTTCATCTC
69856 ATTCCTAGGC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 26 0.49
43 26 0.49
44 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (41 bp):
GCCCTTTACGGGTTTTCATCTCGAACCTTTTTTCTCAAGAT
Found at i:80797 original size:29 final size:30
Alignment explanation
Indices: 80754--80951 Score: 201
Period size: 30 Copynumber: 6.7 Consensus size: 30
80744 AAATTTAAGA
*
80754 TTAAAATTGTGATTTTTG-GAAGTTTGAGGG
1 TTAAAA-TGTAATTTTTGAGAAGTTTGAGGG
* * * *
80784 TTAAAATGTGATTTTTAAGAAATTCGAGGG
1 TTAAAATGTAATTTTTGAGAAGTTTGAGGG
* *
80814 TAAAAATGTAATATTTGAGAAGTTTGAGGG
1 TTAAAATGTAATTTTTGAGAAGTTTGAGGG
* * *
80844 TCAAAATATAATTTTTGAGAAATTTGAGGG
1 TTAAAATGTAATTTTTGAGAAGTTTGAGGG
*
80874 -CAAAATGTAATTTTTGAGAAGTTTTG-GGG
1 TTAAAATGTAATTTTTGAGAAG-TTTGAGGG
*
80903 TTAAAATGTGATTTTTG-GAAAGTTT-AGGG
1 TTAAAATGTAATTTTTGAG-AAGTTTGAGGG
* *
80932 -GAAAATATAATTTTTGAGAA
1 TTAAAATGTAATTTTTGAGAA
80952 ATTCCATGGT
Statistics
Matches: 142, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
28 15 0.11
29 40 0.28
30 87 0.61
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.38
Consensus pattern (30 bp):
TTAAAATGTAATTTTTGAGAAGTTTGAGGG
Found at i:80807 original size:59 final size:59
Alignment explanation
Indices: 80755--80951 Score: 231
Period size: 59 Copynumber: 3.3 Consensus size: 59
80745 AATTTAAGAT
* *
80755 TAAAATTGTGATTTTTG-GAAGTTTGAGGGTTAAAATGTGATTTTTAAGAAATTCGAGGG
1 TAAAA-TGTAATTTTTGAGAAGTTTGAGGGTTAAAATGTGATTTTTAAGAAATTTGAGGG
* * * * *
80814 TAAAAATGTAATATTTGAGAAGTTTGAGGGTCAAAATATAATTTTTGAGAAATTTGAGGG
1 T-AAAATGTAATTTTTGAGAAGTTTGAGGGTTAAAATGTGATTTTTAAGAAATTTGAGGG
* *
80874 CAAAATGTAATTTTTGAGAAGTTTTG-GGGTTAAAATGTGATTTTT-GGAAAGTTT-AGGG
1 TAAAATGTAATTTTTGAGAAG-TTTGAGGGTTAAAATGTGATTTTTAAGAAA-TTTGAGGG
* *
80932 GAAAATATAATTTTTGAGAA
1 TAAAATGTAATTTTTGAGAA
80952 ATTCCATGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
58 26 0.22
59 48 0.40
60 45 0.38
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.38
Consensus pattern (59 bp):
TAAAATGTAATTTTTGAGAAGTTTGAGGGTTAAAATGTGATTTTTAAGAAATTTGAGGG
Found at i:87433 original size:7 final size:7
Alignment explanation
Indices: 87421--87469 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
87411 GAAAATGTTT
87421 TATATAA
1 TATATAA
87428 TATATAA
1 TATATAA
87435 TAGTAT-A
1 TA-TATAA
*
87442 TAGATAA
1 TATATAA
*
87449 TATATAT
1 TATATAA
*
87456 TATATAT
1 TATATAA
87463 TATATAA
1 TATATAA
87470 AGTATTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 2 0.06
7 31 0.86
8 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (7 bp):
TATATAA
Found at i:88116 original size:15 final size:15
Alignment explanation
Indices: 88096--88128 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
88086 ATCTTTCTAT
88096 TTTA-TTATTTTATTA
1 TTTATTTATTTT-TTA
88111 TTTATTTATTTTTTA
1 TTTATTTATTTTTTA
88126 TTT
1 TTT
88129 CGAATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTATTTTTTA
Found at i:88703 original size:15 final size:14
Alignment explanation
Indices: 88679--88716 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
88669 GACCCTAGGA
88679 TCCAATTTGGTTCT
1 TCCAATTTGGTTCT
88693 TCCACATTTGGTTCT
1 TCCA-ATTTGGTTCT
88708 TCCATATTT
1 TCCA-ATTT
88717 TTTATTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.16, C:0.24, G:0.11, T:0.50
Consensus pattern (14 bp):
TCCAATTTGGTTCT
Found at i:88922 original size:30 final size:29
Alignment explanation
Indices: 88888--89149 Score: 150
Period size: 30 Copynumber: 8.8 Consensus size: 29
88878 CTAGAAATTC
88888 ATTTTAACACCCAAACTTTCCAAAAATTTG
1 ATTTTAAC-CCCAAACTTTCCAAAAATTTG
* * * *
88918 ATTTTGATCCTCGAACTTTCCAAAAAATTG
1 ATTTT-AACCCCAAACTTTCCAAAAATTTG
* * *
88948 ATTTTGACCCCTGAACTATCCAAAAATTTG
1 ATTTTAACCCC-AAACTTTCCAAAAATTTG
* * *
88978 ATTTTGACCTCAAACTTTCCAAATATTTG
1 ATTTTAACCCCAAACTTTCCAAAAATTTG
* * * * **
89007 ATTTTGACCCTAAAACTTTTCAAAACTTCA
1 ATTTTAACCC-CAAACTTTCCAAAAATTTG
* * * **
89037 ATTTTAACCCCCGAGCTTTCCAAAACTTCA
1 ATTTTAA-CCCCAAACTTTCCAAAAATTTG
* ** *
89067 ATTTTCACAAACAAACTTTCC-AAAATTCTA
1 ATTTTAAC-CCCAAACTTTCCAAAAATT-TG
*** *
89097 ATTTGGCCCCCAAACTTTCC-AAAATTTCC
1 ATTTTAACCCCAAACTTTCCAAAAATTT-G
* *
89126 AATTTAGCCCCTAAACTTTCCAAA
1 ATTTTAACCCC-AAACTTTCCAAA
89150 TTTTCGTTTT
Statistics
Matches: 181, Mismatches: 42, Indels: 17
0.75 0.17 0.07
Matches are distributed among these distances:
28 1 0.01
29 56 0.31
30 117 0.65
31 7 0.04
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.34
Consensus pattern (29 bp):
ATTTTAACCCCAAACTTTCCAAAAATTTG
Found at i:88942 original size:29 final size:29
Alignment explanation
Indices: 88899--89031 Score: 167
Period size: 30 Copynumber: 4.5 Consensus size: 29
88889 TTTTAACACC
88899 CAAACTTTCCAAAAATTTGATTTTGATCCT
1 CAAACTTTCCAAAAATTTGATTTTGA-CCT
* * *
88929 CGAACTTTCCAAAAAATTGATTTTGACCC
1 CAAACTTTCCAAAAATTTGATTTTGACCT
* *
88958 CTGAACTATCCAAAAATTTGATTTTGACCT
1 C-AAACTTTCCAAAAATTTGATTTTGACCT
*
88988 CAAACTTTCCAAATATTTGATTTTGACCCT
1 CAAACTTTCCAAAAATTTGATTTTGA-CCT
* *
89018 AAAACTTTTCAAAA
1 CAAACTTTCCAAAA
89032 CTTCAATTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
29 25 0.28
30 64 0.72
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (29 bp):
CAAACTTTCCAAAAATTTGATTTTGACCT
Found at i:89041 original size:59 final size:60
Alignment explanation
Indices: 88882--89031 Score: 189
Period size: 59 Copynumber: 2.5 Consensus size: 60
88872 TTTTATCTAG
* * *
88882 AAATTCATTTTAACACCC-AAACTTTCCAAAAATTTGATTTTGATCCTCGAACTTTCCAAA
1 AAATTGATTTTGAC-CCCTAAACTTTCCAAAAATTTGATTTTGATCCTCAAACTTTCCAAA
* *
88942 AAATTGATTTTGACCCCTGAACTATCCAAAAATTTGATTTTGA-CCTCAAACTTTCCAAA
1 AAATTGATTTTGACCCCTAAACTTTCCAAAAATTTGATTTTGATCCTCAAACTTTCCAAA
* * *
89001 TATTTGATTTTGA-CCCTAAAACTTTTCAAAA
1 AAATTGATTTTGACCCCT-AAACTTTCCAAAA
89032 CTTCAATTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
58 4 0.05
59 39 0.50
60 35 0.45
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (60 bp):
AAATTGATTTTGACCCCTAAACTTTCCAAAAATTTGATTTTGATCCTCAAACTTTCCAAA
Found at i:89041 original size:89 final size:89
Alignment explanation
Indices: 88899--89061 Score: 211
Period size: 89 Copynumber: 1.8 Consensus size: 89
88889 TTTTAACACC
* ** * * *
88899 CAAACTTTCCAAAAATTTGATTTTGATCCTCGAACTTTCCAAAAAATTGATTTTGACCCCTGAAC
1 CAAACTTTCCAAAAATTTGATTTTGACCCTAAAACTTTCCAAAAAATTAATTTTAACCCCCGAAC
88964 TATCCAAAAATTTGATTTTGACCT
66 TATCCAAAAATTTGATTTTGACCT
* * * *
88988 CAAACTTTCCAAATATTTGATTTTGACCCTAAAACTTTTC-AAAACTTCAATTTTAACCCCCGAG
1 CAAACTTTCCAAAAATTTGATTTTGACCCTAAAACTTTCCAAAAAATT-AATTTTAACCCCCGAA
*
89052 CTTTCCAAAA
65 CTATCCAAAA
89062 CTTCAATTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
88 6 0.10
89 56 0.90
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.35
Consensus pattern (89 bp):
CAAACTTTCCAAAAATTTGATTTTGACCCTAAAACTTTCCAAAAAATTAATTTTAACCCCCGAAC
TATCCAAAAATTTGATTTTGACCT
Found at i:89071 original size:89 final size:90
Alignment explanation
Indices: 88882--89091 Score: 210
Period size: 89 Copynumber: 2.4 Consensus size: 90
88872 TTTTATCTAG
* ** * **
88882 AAATTC-ATTTTAACACCCAAACTTTCCAAAAATTTGATTTTGATCCTCGAACTTTCCAAAAAAT
1 AAATTCAATTTTCACAAACAAACTTTCCAAAAATTTGATTTTGACCCTAAAACTTTCCAAAAAAT
* * *
88946 TGATTTTGACCCCTGAACTATCCAA
66 TAATTTTAACCCCCGAACTATCCAA
** * ** * * *
88971 AAATTTGATTTTGAC-CTCAAACTTTCCAAATATTTGATTTTGACCCTAAAACTTTTC-AAAACT
1 AAATTCAATTTTCACAAACAAACTTTCCAAAAATTTGATTTTGACCCTAAAACTTTCCAAAAAAT
* *
89034 TCAATTTTAACCCCCGAGCTTTCCAA
66 T-AATTTTAACCCCCGAACTATCCAA
*
89060 AACTTCAATTTTCACAAACAAACTTTCCAAAA
1 AAATTCAATTTTCACAAACAAACTTTCCAAAA
89092 TTCTAATTTG
Statistics
Matches: 97, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
88 6 0.06
89 71 0.73
90 20 0.21
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (90 bp):
AAATTCAATTTTCACAAACAAACTTTCCAAAAATTTGATTTTGACCCTAAAACTTTCCAAAAAAT
TAATTTTAACCCCCGAACTATCCAA
Found at i:91264 original size:5 final size:5
Alignment explanation
Indices: 91254--91315 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
91244 AAAAGAGAGG
* *
91254 GAAAA GAAAA GAAAA AAAAA GAAAA GGAAACA GAAAA -AAGAA -AAAT
1 GAAAA GAAAA GAAAA GAAAA GAAAA -GAAA-A GAAAA GAA-AA GAAAA
91300 GAAGAA GAAAA GAAAA
1 GAA-AA GAAAA GAAAA
91316 AAGGAGAGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
4 3 0.06
5 32 0.67
6 12 0.25
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (5 bp):
GAAAA
Found at i:91275 original size:26 final size:24
Alignment explanation
Indices: 91241--91317 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 24
91231 CATTTTACCC
91241 AAAAAAAGAGAGGGAAAAGAAAAGAA
1 AAAAAAAGA-AGGGAAAAGAAAA-AA
*
91267 AAAAAAAGAAAAGGAAACAGAAAAAA
1 AAAAAAAG-AAGGGAAA-AGAAAAAA
* * *
91293 GAAAAATGAAGAAGAAAAGAAAAAA
1 AAAAAAAGAAG-GGAAAAGAAAAAA
91318 GGAGAGGTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 10 0.23
26 26 0.60
27 7 0.16
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (24 bp):
AAAAAAAGAAGGGAAAAGAAAAAA
Found at i:91279 original size:20 final size:20
Alignment explanation
Indices: 91254--91316 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
91244 AAAAGAGAGG
91254 GAAAAGAAAAGAAAAAAAAA
1 GAAAAGAAAAGAAAAAAAAA
*
91274 GAAAAGGAAACAGAAAAAAGAA
1 GAAAA-GAAA-AGAAAAAAAAA
*
91296 -AAATGAAGAAGAAAAGAAAAA
1 GAAAAGAA-AAGAAAA-AAAAA
91317 AGGAGAGGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
20 14 0.39
21 12 0.33
22 10 0.28
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.02
Consensus pattern (20 bp):
GAAAAGAAAAGAAAAAAAAA
Found at i:92889 original size:123 final size:122
Alignment explanation
Indices: 92490--93538 Score: 1230
Period size: 123 Copynumber: 8.5 Consensus size: 122
92480 ACAGTAGGTC
* * * *
92490 GGATCAAAACAAATGAAGTGGTCATCTTCCTGATGAGATATAGAGAAGTGGACC-AAATCAACGA
1 GGATC-AAAC-AATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAAT-AATGA
* *
92554 AGCGAAGCTCAATGTGAGTGAAACTTCAAAACCCCATCTTCCAGATGAGATATAGAGAAGT
63 AGCGAAGCTCAATGTGAGTGAAACTTC-AAACCCCATCTTCCTGATGAGATACAGAGAAGT
* * * * * * * *
92615 GGGTCAAAACAATGAAGTGATCATCTTCCTAATGAGTTATAGAGAAGTAGACCAAAACAATGAAC
1 GGATC-AAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAG
*
92680 CGAAGCTCAATGTAAGTGAAACTTCAAACCCCATCTTCCTGATGAGATATCA-AGAAGT
65 CGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATA-CAGAGAAGT
* * *
92738 GGATCAAACAATCAAGCGTTCATCTTCCTGATGAGACACAGAGAAGTAGACCAAAATAATGAAGC
1 GGATCAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGC
* *
92803 AAAGCTCAATGTTAGTGAAACTTCAAAGCCCCATCTTCCTGATGAGATACAGAGAAGT
66 GAAGCTCAATGTGAGTGAAACTTCAAA-CCCCATCTTCCTGATGAGATACAGAGAAGT
* * * * * * *
92861 GGATCAGACAATGAAGCGGTCATCTTCCTGATAAGACATAGAGAAGCAGACCAAAACAATGAAGT
1 GGATCAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGC
* *
92926 GAAGCTCAATGTGAGTGAAACTTCAAACCCTCATCTTCTTTATGAGATACAGAGAAGT
66 GAAGCTCAATGTGAGTGAAACTTCAAACCC-CATCTTCCTGATGAGATACAGAGAAGT
* **
92984 GAATCAAACAATCG-AGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAGCAATGAAG
1 GGATCAAACAAT-GAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAG
* * * *
93048 CAAAGCTCAATGTCAGCGAAACTTCAAACCCCCATCTTCTTGATGAGATACAGAGAAGT
65 CGAAGCTCAATGTGAGTGAAACTTCAAA-CCCCATCTTCCTGATGAGATACAGAGAAGT
* * * * * * * *
93107 GGATCAGATAACGAAGCGGTCATCTTCCTAATAAGATACAGAAAAGCAGACCAAAATAATGAAGT
1 GGATCAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGC
* * * *
93172 GAAGCTCAATGTGAGTGAAGCTTTC-AACCTCCATCTTCCTAATGAGATACAAATAAGT
66 GAAGCTCAATGTGAGTGAAAC-TTCAAACC-CCATCTTCCTGATGAGATACAGAGAAGT
* * * * *
93230 GGATTAAACAATCG-AGCGATCATCTTCCTGATGAGATATAGAGAAGTAGGCCAAAATAATAAAG
1 GGATCAAACAAT-GAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAG
* * * * * * *
93294 CGAAGCTCAAAGTTAGCGAAACTTCAAACCACTATCTTCTTGATGAGATACTGAAAAGT
65 CGAAGCTCAATGTGAGTGAAACTTCAAACC-CCATCTTCCTGATGAGATACAGAGAAGT
* * *
93353 GTATCAAACAATCAAGCGGTCATCTTCCTGATAAGATACAGAGAAGTAGACCAAAATAATGAAGC
1 GGATCAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGC
* ** * * *
93418 AAAGCTTTATGTGAGTGAAACTTCAAAACCCCATCTTCTTGATGAGATATAGA-AAAT
66 GAAGCTCAATGTGAGTGAAACTTC-AAACCCCATCTTCCTGATGAGATACAGAGAAGT
* * * ** * *
93475 GGGTCAAACAACGAAGCGATTGTCTTCTTGAGGAGATACAGAGAAGTAGACCAAAAT-ATGAAGC
1 GGATCAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGC
93539 TACGACACCA
Statistics
Matches: 792, Mismatches: 118, Indels: 32
0.84 0.13 0.03
Matches are distributed among these distances:
121 7 0.01
122 137 0.17
123 554 0.70
124 82 0.10
125 12 0.02
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (122 bp):
GGATCAAACAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGC
GAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGT
Found at i:95290 original size:29 final size:29
Alignment explanation
Indices: 95238--95455 Score: 247
Period size: 30 Copynumber: 7.4 Consensus size: 29
95228 TTTTATTTAG
* * *
95238 AAATTTCATTTTAACTCTTAAACTTTCCAA
1 AAATTTGATTTTGAC-CCTAAACTTTCCAA
* * *
95268 AAATTTTATATTGACCCTAAACTTTCTAA
1 AAATTTGATTTTGACCCTAAACTTTCCAA
* *
95297 AAATTTGATTTTAACCCCCAAACTTTCCAA
1 AAATTTGATTTTGA-CCCTAAACTTTCCAA
* * * *
95327 AAATTTTATTTTGACCCTTAACTTTCTAG
1 AAATTTGATTTTGACCCTAAACTTTCCAA
* * *
95356 AAATTTGATTTTAACCCTGAACTTTACAA
1 AAATTTGATTTTGACCCTAAACTTTCCAA
95385 AAATTTGATTTTGACCCCTAAACTTTCCAA
1 AAATTTGATTTTGA-CCCTAAACTTTCCAA
*
95415 AACTTTGATTTTGACCCTCAAACTTTCCAA
1 AAATTTGATTTTGACCCT-AAACTTTCCAA
*
95445 AAATTTTATTT
1 AAATTTGATTT
95456 AACCCCCTAA
Statistics
Matches: 157, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
29 74 0.47
30 83 0.53
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (29 bp):
AAATTTGATTTTGACCCTAAACTTTCCAA
Found at i:95320 original size:59 final size:60
Alignment explanation
Indices: 95238--95478 Score: 294
Period size: 59 Copynumber: 4.1 Consensus size: 60
95228 TTTTATTTAG
* * ** *
95238 AAATTTCATTTTAACTCTTAAACTTTCCAAAAATTTTATATTGA-CCCTAAACTTTCTAA
1 AAATTTGATTTTAACCCCCAAACTTTCCAAAAATTTTATTTTGACCCCTAAACTTTCTAA
* *
95297 AAATTTGATTTTAACCCCCAAACTTTCCAAAAATTTTATTTTGA-CCCTTAACTTTCTAG
1 AAATTTGATTTTAACCCCCAAACTTTCCAAAAATTTTATTTTGACCCCTAAACTTTCTAA
** * * *
95356 AAATTTGATTTTAA-CCCTGAACTTTACAAAAATTTGATTTTGACCCCTAAACTTTCCAA
1 AAATTTGATTTTAACCCCCAAACTTTCCAAAAATTTTATTTTGACCCCTAAACTTTCTAA
* * * *
95415 AACTTTGATTTTGACCCTCAAACTTTCCAAAAATTTTA-TTTAACCCCCT-AACTTTCTAA
1 AAATTTGATTTTAACCCCCAAACTTTCCAAAAATTTTATTTTGA-CCCCTAAACTTTCTAA
95474 AAATT
1 AAATT
95479 CTAATTTGGC
Statistics
Matches: 155, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
58 25 0.16
59 107 0.69
60 23 0.15
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (60 bp):
AAATTTGATTTTAACCCCCAAACTTTCCAAAAATTTTATTTTGACCCCTAAACTTTCTAA
Found at i:95322 original size:30 final size:30
Alignment explanation
Indices: 95238--95478 Score: 242
Period size: 29 Copynumber: 8.2 Consensus size: 30
95228 TTTTATTTAG
* * *
95238 AAATTTCATTTTAACTCTTAAACTTTCCAA
1 AAATTTGATTTTAACCCCTAAACTTTCCAA
* * * *
95268 AAATTTTATATTGA-CCCTAAACTTTCTAA
1 AAATTTGATTTTAACCCCTAAACTTTCCAA
*
95297 AAATTTGATTTTAACCCCCAAACTTTCCAA
1 AAATTTGATTTTAACCCCTAAACTTTCCAA
* * * * *
95327 AAATTTTATTTTGA-CCCTTAACTTTCTAG
1 AAATTTGATTTTAACCCCTAAACTTTCCAA
* *
95356 AAATTTGATTTTAA-CCCTGAACTTTACAA
1 AAATTTGATTTTAACCCCTAAACTTTCCAA
*
95385 AAATTTGATTTTGACCCCTAAACTTTCCAA
1 AAATTTGATTTTAACCCCTAAACTTTCCAA
* *
95415 AACTTTGATTTTGA-CCCTCAAACTTTCCAA
1 AAATTTGATTTTAACCCCT-AAACTTTCCAA
* *
95445 AAATTTTA-TTTAACCCCCT-AACTTTCTAA
1 AAATTTGATTTTAA-CCCCTAAACTTTCCAA
95474 AAATT
1 AAATT
95479 CTAATTTGGC
Statistics
Matches: 175, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
29 92 0.53
30 79 0.45
31 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (30 bp):
AAATTTGATTTTAACCCCTAAACTTTCCAA
Found at i:95544 original size:29 final size:29
Alignment explanation
Indices: 95238--95544 Score: 187
Period size: 29 Copynumber: 10.4 Consensus size: 29
95228 TTTTATTTAG
* * * *
95238 AAATTTCATTTTAACTCTTAAACTTTCCAA
1 AAATTTTATTTTAGCCCCTAAACTTTCC-A
* * *
95268 AAATTTTATATT-GACCCTAAACTTTCTAA
1 AAATTTTATTTTAGCCCCTAAACTTTC-CA
* * *
95297 AAATTTGATTTTAACCCCCAAACTTTCCAA
1 AAATTTTATTTTAGCCCCTAAACTTTCC-A
* * *
95327 AAATTTTATTTT-GACCCTTAACTTTCTA
1 AAATTTTATTTTAGCCCCTAAACTTTCCA
* * * *
95355 GAAATTTGATTTTA-ACCCTGAACTTTACAA
1 -AAATTTTATTTTAGCCCCTAAACTTT-CCA
*
95385 AAATTTGATTTT-GACCCCTAAACTTTCCA
1 AAATTTTATTTTAG-CCCCTAAACTTTCCA
* *
95414 AAACTTTGATTTT-GACCCTCAAACTTTCCAA
1 AAA-TTTTATTTTAGCCCCT-AAACTTTCC-A
* * *
95445 AAATTTTATTTAACCCCCT-AACTTTCTAA
1 AAATTTTATTTTAGCCCCTAAACTTTC-CA
* * * *
95474 AAATTCTAATTTGGCCCCTAAAATTTCC-
1 AAATTTTATTTTAGCCCCTAAACTTTCCA
* * * *
95502 ATATTTCCAATTTAGCCCCTGAACTTTCCA
1 AAATTT-TATTTTAGCCCCTAAACTTTCCA
95532 AAATTTTATTTTA
1 AAATTTTATTTTA
95545 TCTCTCGTTC
Statistics
Matches: 214, Mismatches: 47, Indels: 33
0.73 0.16 0.11
Matches are distributed among these distances:
28 5 0.02
29 119 0.56
30 82 0.38
31 8 0.04
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (29 bp):
AAATTTTATTTTAGCCCCTAAACTTTCCA
Found at i:96540 original size:6 final size:6
Alignment explanation
Indices: 96529--96618 Score: 80
Period size: 6 Copynumber: 15.5 Consensus size: 6
96519 ATTTGTTTAA
* * * *
96529 AAATTT AAATTT -ATTTT AAATTT AAATGT -ATTTT AAATTT AAATGT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * *
96575 -ATTTT AAATTT AAATTT AAGTTT AAATTT -ATTATT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAAT-TT AAATTT AAA
96619 ATTATTATGA
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
5 12 0.18
6 51 0.78
7 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (6 bp):
AAATTT
Found at i:96618 original size:18 final size:17
Alignment explanation
Indices: 96497--96604 Score: 137
Period size: 17 Copynumber: 6.2 Consensus size: 17
96487 CAAGCTCCCC
96497 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
* *
96515 -TTAAATTTGTTTAAAAA
1 TTTAAATTTATTT-TAAA
96532 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
96549 TTTAAATGTATTTTAAA
1 TTTAAATTTATTTTAAA
*
96566 TTTAAATGTATTTTAAA
1 TTTAAATTTATTTTAAA
*
96583 TTTAAATTTAAGTTTAAA
1 TTTAAATTT-ATTTTAAA
96601 TTTA
1 TTTA
96605 TTATTAAATT
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
17 56 0.70
18 24 0.30
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:96623 original size:18 final size:17
Alignment explanation
Indices: 96497--96637 Score: 100
Period size: 17 Copynumber: 8.5 Consensus size: 17
96487 CAAGCTCCCC
*
96497 TTTAAATTTATTTTAAGA
1 TTTAAAATTATTTTAA-A
* * *
96515 -TTAAATTTGTTTAAAAA
1 TTTAAAATTATTT-TAAA
*
96532 TTTAAATTTATTTTAAA
1 TTTAAAATTATTTTAAA
96549 TTT-AAATGTATTTTAAA
1 TTTAAAAT-TATTTTAAA
96566 TTT-AAATGTATTTTAAA
1 TTTAAAAT-TATTTTAAA
*
96583 TTT--AA--A-TTTAAG
1 TTTAAAATTATTTTAAA
*
96595 TTTAAATTTATTATTAAA
1 TTTAAAATTATT-TTAAA
* *
96613 TTTAAAATTATTATGAA
1 TTTAAAATTATTTTAAA
96630 TTTAAAAT
1 TTTAAAAT
96638 AAATAAAGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 19
0.77 0.08 0.14
Matches are distributed among these distances:
12 8 0.08
13 1 0.01
14 1 0.01
16 6 0.06
17 59 0.57
18 28 0.27
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TTTAAAATTATTTTAAA
Done.