Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004547.1 Hibiscus syriacus cultivar Beakdansim tig00010091_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 170957
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:288 original size:21 final size:21
Alignment explanation
Indices: 236--290 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
226 AGATTTTATG
*
236 TTAAAG-TGAATTTTTAAAATT
1 TTAAAGAT-AATTTATAAAATT
257 TTAAGAAAGATAATTTATAAAATT
1 TT---AAAGATAATTTATAAAATT
281 TTAAAGATAA
1 TTAAAGATAA
291 AAATAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.34
24 18 0.62
25 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
TTAAAGATAATTTATAAAATT
Found at i:325 original size:17 final size:17
Alignment explanation
Indices: 304--341 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
294 TAAATTATCA
304 TAAAAATATA-AAAATT
1 TAAAAATATATAAAATT
*
320 TAAAAATATATAATATT
1 TAAAAATATATAAAATT
337 TAAAA
1 TAAAA
342 TTTTTAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATATATAAAATT
Found at i:589 original size:3 final size:3
Alignment explanation
Indices: 581--681 Score: 60
Period size: 3 Copynumber: 31.7 Consensus size: 3
571 TTTTATTCGA
* * * *
581 ATT ATT ATT AAT ATT ATAT AAT ATT ATT AATT GCTT ATG ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT -ATT -ATT ATT ATT ATT ATT
* * * *
629 ATC ATT AATT ATT AGT ATT -TA ATT ATT AGTT ACT ATT ATT AATT ATTT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT -ATT A-TT
677 ATT AT
1 ATT AT
682 AGTTAATATA
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
2 1 0.01
3 54 0.73
4 19 0.26
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:1784 original size:11 final size:11
Alignment explanation
Indices: 1763--1798 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
1753 TTTGGTCTAG
1763 ATTTGCA-TCT
1 ATTTGCATTCT
1773 ATTTGCATTCT
1 ATTTGCATTCT
1784 ATTTGCATTCT
1 ATTTGCATTCT
1795 ATTT
1 ATTT
1799 TGGCTCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (11 bp):
ATTTGCATTCT
Found at i:3083 original size:23 final size:24
Alignment explanation
Indices: 3037--3084 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
3027 ATTTTCTATC
*
3037 TTTTCATATTTTCACTTATTTTTT
1 TTTTCATATTTTCACTAATTTTTT
*
3061 TTTTCAT-TTTTCA-TAATTATTT
1 TTTTCATATTTTCACTAATTTTTT
3083 TT
1 TT
3085 CAATTTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 6 0.27
24 7 0.32
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTCATATTTTCACTAATTTTTT
Found at i:6351 original size:14 final size:14
Alignment explanation
Indices: 6328--6368 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6318 AGTCAAAGTC
*
6328 AACGGGTTGACTCG
1 AACGAGTTGACTCG
*
6342 AACGATTTGACTCG
1 AACGAGTTGACTCG
*
6356 GACGAGTTGACTC
1 AACGAGTTGACTC
6369 ATTCCAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (14 bp):
AACGAGTTGACTCG
Found at i:11584 original size:30 final size:30
Alignment explanation
Indices: 11548--11627 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
11538 ATAAAATTGA
* *
11548 TAAAAAATGATCGAAAATATTATTAGGTGT
1 TAAAAAATGATCGAAAATATTATTAGGCGC
*
11578 TAAAAAAT-ATCCGAAAACATTATTAGGCGC
1 TAAAAAATGAT-CGAAAATATTATTAGGCGC
* *
11608 TAAAATATGACCGAAAATAT
1 TAAAAAATGATCGAAAATAT
11628 AAAAAAAATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.93
31 1 0.02
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.28
Consensus pattern (30 bp):
TAAAAAATGATCGAAAATATTATTAGGCGC
Found at i:13399 original size:20 final size:20
Alignment explanation
Indices: 13374--13412 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
13364 CACCAATTCC
13374 ACCAACTCCACTAATGATGT
1 ACCAACTCCACTAATGATGT
13394 ACCAACTCCACTAATGATG
1 ACCAACTCCACTAATGATG
13413 CACACCACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.23
Consensus pattern (20 bp):
ACCAACTCCACTAATGATGT
Found at i:17794 original size:22 final size:22
Alignment explanation
Indices: 17766--17847 Score: 101
Period size: 22 Copynumber: 3.7 Consensus size: 22
17756 ATCAGTGGCT
**
17766 GTGCAGCCCGCTTCCAGCATTC
1 GTGCAGCCTACTTCCAGCATTC
* *
17788 GTGCAGCCTACTTTCAACATTC
1 GTGCAGCCTACTTCCAGCATTC
* *
17810 GTACAACCTACTTCCAGCATTC
1 GTGCAGCCTACTTCCAGCATTC
*
17832 GTGCAGCCTTCTTCCA
1 GTGCAGCCTACTTCCA
17848 CCATCCGTAC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.20, C:0.37, G:0.16, T:0.28
Consensus pattern (22 bp):
GTGCAGCCTACTTCCAGCATTC
Found at i:18038 original size:27 final size:28
Alignment explanation
Indices: 17999--18073 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
17989 AATGATAGTA
* * *
17999 TTATTATAATTTAT-GAGAAGTTGTCCT
1 TTATTATAATTTATAAAAAAATTGTCCT
* *
18026 TTATTGTATTTTATAAAAAAATTGTCCT
1 TTATTATAATTTATAAAAAAATTGTCCT
*
18054 TTATCATAATTTATAAAAAA
1 TTATTATAATTTATAAAAAA
18074 GTATACTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 12 0.31
28 27 0.69
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (28 bp):
TTATTATAATTTATAAAAAAATTGTCCT
Found at i:18106 original size:22 final size:22
Alignment explanation
Indices: 18063--18107 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
18053 TTTATCATAA
*
18063 TTTATAAAAAAGTATACTTTAT
1 TTTATAAAAAAGTATACATTAT
*
18085 TTTAT-AAAAAGTTTTACATTAT
1 TTTATAAAAAAG-TATACATTAT
18107 T
1 T
18108 ATAATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTATAAAAAAGTATACATTAT
Found at i:18115 original size:27 final size:28
Alignment explanation
Indices: 18085--18149 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
18075 TATACTTTAT
18085 TTTATAAAAAGTTT-TACATT-ATTATAA
1 TTTATAAAAAGTTTGTAC-TTCATTATAA
*
18112 TTTATAAACAATTTTGTACTTCATTATAA
1 TTTATAAA-AAGTTTGTACTTCATTATAA
*
18141 TTCATAAAA
1 TTTATAAAA
18150 CCTTTTGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 8 0.24
28 8 0.24
29 17 0.52
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (28 bp):
TTTATAAAAAGTTTGTACTTCATTATAA
Found at i:21217 original size:29 final size:30
Alignment explanation
Indices: 21175--21242 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
21165 ATAAGCCTTA
* * * * *
21175 GAAAATTTGGGGACCATTTTG-TAATTTTT
1 GAAAAGTTGGGGACCAATTCGATAACTTTG
21204 GAAAAGTTGGGGACCAATTCGATAACTTTG
1 GAAAAGTTGGGGACCAATTCGATAACTTTG
21234 GAAAAGTTG
1 GAAAAGTTG
21243 TGAATGGTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (30 bp):
GAAAAGTTGGGGACCAATTCGATAACTTTG
Found at i:23421 original size:12 final size:11
Alignment explanation
Indices: 23402--23498 Score: 61
Period size: 12 Copynumber: 8.4 Consensus size: 11
23392 AGATCCAATC
*
23402 AGAAAAAAAAT
1 AGAAAAAAAAA
*
23413 AG-AAAAAAAG
1 AGAAAAAAAAA
*
23423 AGAGAAAAACAA
1 AGA-AAAAAAAA
23435 AGAAAAAACAAA
1 AGAAAAAA-AAA
23447 TAGAAAATAAAAA
1 -AGAAAA-AAAAA
*
23460 AGAGAAACAAAA
1 AGA-AAAAAAAA
* **
23472 ACAAAGGAAAA
1 AGAAAAAAAAA
*
23483 AGTAAAGAAAAA
1 AG-AAAAAAAAA
23495 AGAA
1 AGAA
23499 GACAAGATGC
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
10 9 0.13
11 16 0.23
12 30 0.43
13 12 0.17
14 2 0.03
ACGTcount: A:0.77, C:0.04, G:0.14, T:0.04
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:23451 original size:35 final size:34
Alignment explanation
Indices: 23404--23470 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 34
23394 ATCCAATCAG
*
23404 AAAAAAAATAGAAAA-AAAGAGAGAAAAACAAAGA
1 AAAAAAAATAGAAAATAAA-AAAGAAAAACAAAGA
*
23438 AAAAACAAATAGAAAATAAAAAAGAGAAACAAA
1 AAAAA-AAATAGAAAATAAAAAAGAAAAACAAA
23471 AACAAAGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 5 0.17
35 21 0.72
36 3 0.10
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.04
Consensus pattern (34 bp):
AAAAAAAATAGAAAATAAAAAAGAAAAACAAAGA
Found at i:23472 original size:14 final size:13
Alignment explanation
Indices: 23415--23472 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
23405 AAAAAAATAG
*
23415 AAAAAAAGAGAGA
1 AAAAAAAGAGAAA
*
23428 AAAACAA-AGAAA
1 AAAAAAAGAGAAA
* *
23440 AAACAAATAGAAA
1 AAAAAAAGAGAAA
23453 ATAAAAAAGAGAAA
1 A-AAAAAAGAGAAA
*
23467 CAAAAA
1 AAAAAA
23473 CAAAGGAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
12 9 0.25
13 17 0.47
14 10 0.28
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.03
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:29806 original size:4 final size:4
Alignment explanation
Indices: 29797--29829 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
29787 TCTGATATCC
29797 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
29830 TAGTTTAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:40388 original size:81 final size:81
Alignment explanation
Indices: 40248--40745 Score: 771
Period size: 81 Copynumber: 6.1 Consensus size: 81
40238 TGTTAATCAT
* *
40248 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATCGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
* *
40313 ATGCACAACTAGGCAA
66 ATGCACAGCTAGACAA
* * * *
40329 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAGCTTGCAATATTGACACTTTTCTGCAAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
*
40394 ATGCACAGCTAGACAC
66 ATGCACAGCTAGACAA
* * *
40410 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAAAATTGTCACATTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
40475 ATGCACAGCTAGACAA
66 ATGCACAGCTAGACAA
* *
40491 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAATTTGCAATATGGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
*
40556 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGACAA
* * * * *
40572 TTAATTTTTTTACTCAAAGGCATTTAGCCTTTAATCTAACTTGCAACATTGGCACCTTTCTACCA
1 TTAA-TCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCA
40637 AATGCACAGCTAGACAA
65 AATGCACAGCTAGACAA
*
40654 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
* **
40719 ATGCACAGTTAGGTAA
66 ATGCACAGCTAGACAA
40735 TTAATCTTTTA
1 TTAATCTTTTA
40746 TTTTAAGAAC
Statistics
Matches: 381, Mismatches: 35, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
81 308 0.81
82 73 0.19
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
ATGCACAGCTAGACAA
Found at i:40657 original size:163 final size:163
Alignment explanation
Indices: 40254--40744 Score: 761
Period size: 163 Copynumber: 3.0 Consensus size: 163
40244 TCATTTAATA
* *
40254 TTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATCGACACCTTTCTGCCAAATGCAC
1 TTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAAAATTGACACCTTTCTGCCAAATGCAC
* * * * * *
40319 AACTAGGCAATTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAGCTTGCAATATTGACACT
66 AGCTAGACAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATGGACACC
* * * *
40384 TTTCTGCAAAATGCACAGCTAGACACTTAA-TC
131 TTTCTGCCAAATGCACAGCTAGGCAATTAATTT
* *
40416 TTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAAAATTGTCACATTTCTGCCAAATGCAC
1 TTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAAAATTGACACCTTTCTGCCAAATGCAC
*
40481 AGCTAGACAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAATTTGCAATATGGACACC
66 AGCTAGACAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATGGACACC
40546 TTTCTGCCAAATGCACAGCTAGGCAATTAATTT
131 TTTCTGCCAAATGCACAGCTAGGCAATTAATTT
* * * *
40579 TTTTACTCAAAGGCATTTAGCCTTTAATCTAACTTGCAACATTGGCACCTTTCTACCAAATGCAC
1 TTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAAAATTGACACCTTTCTGCCAAATGCAC
40644 AGCTAGACAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGG-CAC
66 AGCTAGACAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATA-TGGACAC
* * *
40708 CTTTCTGCCAAATGCACAGTTAGGTAATTAATCT
130 CTTTCTGCCAAATGCACAGCTAGGCAATTAATTT
40742 TTT
1 TTT
40745 ATTTTAAGAA
Statistics
Matches: 303, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
162 146 0.48
163 154 0.51
164 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (163 bp):
TTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAAAATTGACACCTTTCTGCCAAATGCAC
AGCTAGACAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATGGACACC
TTTCTGCCAAATGCACAGCTAGGCAATTAATTT
Found at i:41305 original size:95 final size:95
Alignment explanation
Indices: 41162--41362 Score: 253
Period size: 95 Copynumber: 2.1 Consensus size: 95
41152 CCATACCATG
* * * * * *
41162 GTATCGATACTTATATACTATGGTACATATACTCTCTTTTAGTATCGATACCACTTT-GGCATTC
1 GTATCAATACTTATATACTATGGTACAGATACCCCCTTTCAGTATCGATACCA-TTTCGACATTC
*
41226 TGGAATCCATGGTATCGATACCTTTCTCCTA
65 TGGAATCCAAGGTATCGATACCTTTCTCCTA
* * * *
41257 GTA-CTAATACTTCTATACTATGGTACCGATACCCCCTTTCAGTATCGATACCATTTCTACATTT
1 GTATC-AATACTTATATACTATGGTACAGATACCCCCTTTCAGTATCGATACCATTTCGACATTC
* *
41321 TGGATTCCAAGGTATCGATACCTTTCTCTTA
65 TGGAATCCAAGGTATCGATACCTTTCTCCTA
41352 GTATCAATACT
1 GTATCAATACT
41363 CACATTAGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
94 4 0.04
95 85 0.94
96 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (95 bp):
GTATCAATACTTATATACTATGGTACAGATACCCCCTTTCAGTATCGATACCATTTCGACATTCT
GGAATCCAAGGTATCGATACCTTTCTCCTA
Found at i:41372 original size:18 final size:18
Alignment explanation
Indices: 41349--41398 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
41339 TACCTTTCTC
*
41349 TTAGTATCAATACTCACA
1 TTAGTATCGATACTCACA
41367 TTAGTATCGATACTCACA
1 TTAGTATCGATACTCACA
*
41385 TCAGTATCGATACT
1 TTAGTATCGATACT
41399 ATCGATACCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (18 bp):
TTAGTATCGATACTCACA
Found at i:42822 original size:3 final size:3
Alignment explanation
Indices: 42814--42877 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
42804 TCCAAATTGA
* *
42814 TAT TAT TA- TAT TAT TAT ATAT TAT TAT ATAT AAT AAAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT -TAT TAT TAT TAT
*
42860 TAAG TAT TAT TAT TAT TA
1 T-AT TAT TAT TAT TAT TA
42878 CATTATATAC
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 4 0.08
3 36 0.71
4 11 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:42835 original size:10 final size:10
Alignment explanation
Indices: 42814--42877 Score: 60
Period size: 10 Copynumber: 6.2 Consensus size: 10
42804 TCCAAATTGA
42814 TATTATTATAT
1 TATTA-TATAT
42825 TATTATATAT
1 TATTATATAT
42835 TATTATATAT
1 TATTATATAT
* *
42845 AATAAATTATAT
1 TAT-TA-TATAT
42857 TATTA-AGTAT
1 TATTATA-TAT
42867 TATTAT-TAT
1 TATTATATAT
42876 TA
1 TA
42878 CATTATATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 6 0.13
10 25 0.56
11 7 0.16
12 7 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
TATTATATAT
Found at i:44127 original size:10 final size:10
Alignment explanation
Indices: 44114--44150 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
44104 TTTTGAATCT
44114 TTTTAATTAA
1 TTTTAATTAA
44124 TTTTAATTAA
1 TTTTAATTAA
44134 TTTTAATT--
1 TTTTAATTAA
44142 TTTTAATTA
1 TTTTAATTA
44151 TTAACTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.31
10 18 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTAATTAA
Found at i:52092 original size:199 final size:199
Alignment explanation
Indices: 51746--52177 Score: 661
Period size: 199 Copynumber: 2.2 Consensus size: 199
51736 CATAAATTTG
* * *
51746 TAAAGCCTCCGGGTCATATGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGATAGCGA
1 TAAATCCTCCGGGTCATATGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAATGAGATAGCAA
* * *
51811 TTTTTAAAGTTTCACATTTAATGTTCAAGAAAATTAAATCCTCCGGGTCATCTGTAAAACCTCAG
66 TTTTCAAAGTTTCACATTTAATGTTCAAGAAAATTAAATCATACGGGTCATCTGTAAAACCTCAG
* * *
51876 GGTAGGATGTTTTCACATGATAAATGAGATAGCGGTTTTCAAAGTTTGTCATTTAATGTTCA-AG
131 GGTAGGATGTCTTCACATGAAAAATGAGATAGCGATTTTCAAAGTTTGTCATTTAATGTT-ATAG
51940 AAAAT
195 AAAAT
*
51945 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAAATGAGATAGCA
1 TAAATCCTCCGGGTCATATGTAAAACCTCAGGGTAGGATGTTTTCACATG-AAAATGAGATAGCA
* * *
52010 ATTTTCAAAGTTTCTCATTTAATGTTTAAGAAAATTAAAT-ATATGGGTCATCTGTAAAACCTCA
65 ATTTTCAAAGTTTCACATTTAATGTTCAAGAAAATTAAATCATACGGGTCATCTGTAAAACCTCA
* *
52074 GGGTAGGATGTCTTCACATGAAAAATGAGATAGCGATTTTCAAAGTTTTTTATTTAATGTTATAG
130 GGGTAGGATGTCTTCACATGAAAAATGAGATAGCGATTTTCAAAGTTTGTCATTTAATGTTATAG
52139 AAAAT
195 AAAAT
* * * *
52144 TAAATCCTCCGGGTCTTTTGTAAAATCTCCGGGT
1 TAAATCCTCCGGGTCATATGTAAAACCTCAGGGT
52178 CTTTTGTAAA
Statistics
Matches: 212, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
198 1 0.00
199 161 0.76
200 50 0.24
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (199 bp):
TAAATCCTCCGGGTCATATGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAATGAGATAGCAA
TTTTCAAAGTTTCACATTTAATGTTCAAGAAAATTAAATCATACGGGTCATCTGTAAAACCTCAG
GGTAGGATGTCTTCACATGAAAAATGAGATAGCGATTTTCAAAGTTTGTCATTTAATGTTATAGA
AAAT
Found at i:52103 original size:99 final size:100
Alignment explanation
Indices: 51746--52177 Score: 654
Period size: 100 Copynumber: 4.3 Consensus size: 100
51736 CATAAATTTG
* * *
51746 TAAAGCCTCCGGGTCATATGTAAAACCTCAGGGTAGGATGTTTTCGCATG-AAAATGAGATAGCG
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAAATGAGATAGCG
* *
51810 ATTTTTAAAGTTTCACATTTAATGTTCAAGAAAAT
66 ATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAAT
*
51845 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGATAAATGAGATAGCG
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAAATGAGATAGCG
* *
51910 GTTTTCAAAGTTTGTCATTTAATGTTCAAGAAAAT
66 ATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAAT
*
51945 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAAATGAGATAGCA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAAATGAGATAGCG
*
52010 ATTTTCAAAGTTTCTCATTTAATGTTTAAGAAAAT
66 ATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAAT
* ** *
52045 TAAAT-ATATGGGTCATCTGTAAAACCTCAGGGTAGGATGTCTTCACATGAAAAATGAGATAGCG
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAAATGAGATAGCG
* *
52109 ATTTTCAAAGTTTTTTATTTAATGTT-ATAGAAAAT
66 ATTTTCAAAGTTTCTCATTTAATGTTCA-AGAAAAT
* * * *
52144 TAAATCCTCCGGGTCTTTTGTAAAATCTCCGGGT
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGT
52178 CTTTTGTAAA
Statistics
Matches: 303, Mismatches: 27, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
98 1 0.00
99 137 0.45
100 165 0.54
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (100 bp):
TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCACATGAAAAATGAGATAGCG
ATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAAT
Found at i:52209 original size:20 final size:20
Alignment explanation
Indices: 52144--52209 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
52134 TATAGAAAAT
*
52144 TAAATCCTCCGGGTCTTTTG
1 TAAAACCTCCGGGTCTTTTG
*
52164 TAAAATCTCCGGGTCTTTTG
1 TAAAACCTCCGGGTCTTTTG
* *
52184 TAAAACCTCCGGGTCATCTG
1 TAAAACCTCCGGGTCTTTTG
52204 TAAAAC
1 TAAAAC
52210 TTCAGGGTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (20 bp):
TAAAACCTCCGGGTCTTTTG
Found at i:52370 original size:3 final size:3
Alignment explanation
Indices: 52362--52448 Score: 72
Period size: 3 Copynumber: 28.7 Consensus size: 3
52352 TCCGAATTGA
* *
52362 TAT TAT TA- TAT TAT TAT TAT TAC TAT TAT TAC TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * *
52407 T-T TAT ATAT AAT ACAT TA- TAT TAT TAAG TAT TAT TAT TAT TA
1 TAT TAT -TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA
52449 CATTATATAC
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
2 6 0.09
3 52 0.76
4 10 0.15
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:52412 original size:7 final size:7
Alignment explanation
Indices: 52361--52457 Score: 51
Period size: 7 Copynumber: 13.4 Consensus size: 7
52351 GTCCGAATTG
52361 ATATTATT
1 ATATTA-T
52369 ATATTAT
1 ATATTAT
52376 -TATTATT
1 ATATTA-T
52383 ACTATTATT
1 A-TATTA-T
52392 ACTATTAT
1 A-TATTAT
52400 -TA-TAT
1 ATATTAT
*
52405 ATTTTAT
1 ATATTAT
*
52412 ATATAAT
1 ATATTAT
*
52419 ACATTAT
1 ATATTAT
52426 ATTATTA-
1 A-TATTAT
52433 AGTATTAT
1 A-TATTAT
52441 -TATTATT
1 ATATTA-T
*
52448 ACATTAT
1 ATATTAT
52455 ATA
1 ATA
52458 CAAGACCCGA
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
5 3 0.04
6 13 0.18
7 26 0.37
8 15 0.21
9 14 0.20
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (7 bp):
ATATTAT
Found at i:55833 original size:2 final size:2
Alignment explanation
Indices: 55826--55851 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55816 TTATTAAAAC
55826 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
55852 CAAACATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62687 original size:90 final size:90
Alignment explanation
Indices: 62534--62700 Score: 282
Period size: 90 Copynumber: 1.9 Consensus size: 90
62524 GACCTAACAC
*
62534 ATCCTTTTATATTCAAGTTACCCTAATCACATTAGGGATTTTACTATTTCAAATTAATTAAATCT
1 ATCCTTTTAAATTCAAGTTACCCTAATCACATTAGGGATTTTACTATTTCAAATTAATTAAATCT
62599 ATATTTAATTAATTGGAATTTAATA
66 ATATTTAATTAATTGGAATTTAATA
* * *
62624 ATCCTTTTAAATCTGAA-TTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATC
1 ATCCTTTTAAAT-TCAAGTTACCCTAATCACATTAGGGATTTTACTATTTCAAATTAATTAAATC
62688 TATATTTAATTAA
65 TATATTTAATTAA
62701 CTGAAATTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
90 69 0.96
91 3 0.04
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (90 bp):
ATCCTTTTAAATTCAAGTTACCCTAATCACATTAGGGATTTTACTATTTCAAATTAATTAAATCT
ATATTTAATTAATTGGAATTTAATA
Found at i:66757 original size:81 final size:81
Alignment explanation
Indices: 66554--67129 Score: 816
Period size: 81 Copynumber: 7.1 Consensus size: 81
66544 TGTTAATCAT
* * * *
66554 TTAATCTTTTACTCAAAGGCATTTAGCATTTCATCTAACTTGCAATATTGACACATTTCTTCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
*
66619 ATGCACAACTAGGC-A
66 ATGCACAGCTAGGCAA
* * *
66634 TTAAACTTTTACTCAAAGGCATTTAGACTTTCATCTAACTTGCAGTATTGGCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
66699 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
** *
66715 TTAATCTTTTACTCAAAGAAATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* *
66780 ATGCACAACTAGACAA
66 ATGCACAGCTAGGCAA
* *
66796 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCTAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
*
66861 ATGCACTA-CTAGGTAA
66 ATGCAC-AGCTAGGCAA
* * * *
66877 TTAATCTTTTACTCAAAGGCATTTATCCTTTCATCTAACTTGCAAT-TTGGTACATTTTTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
66941 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
* * * *
66957 TTAATATTTTACGCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTATGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* * **
67022 ATGCATATCTAGAAAA
66 ATGCACAGCTAGGCAA
* * *
67038 TTAATCTTTTACTCAAAGGAATTTAGCCTTTCATCTAACTTGCAATATTAGCACCTTTCTACCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* * *
67103 ATGAAAAGCTAGACAA
66 ATGCACAGCTAGGCAA
67119 TTAATCTTTTA
1 TTAATCTTTTA
67130 TTTTAAGAAC
Statistics
Matches: 440, Mismatches: 52, Indels: 7
0.88 0.10 0.01
Matches are distributed among these distances:
79 1 0.00
80 141 0.32
81 297 0.68
82 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
ATGCACAGCTAGGCAA
Found at i:67006 original size:161 final size:163
Alignment explanation
Indices: 66554--67129 Score: 826
Period size: 161 Copynumber: 3.6 Consensus size: 163
66544 TGTTAATCAT
* * *
66554 TTAATCTTTTACTCAAAGGCATTTAGCATTTCATCTAACTTGCAATATTGACACATTTCTTCCAA
1 TTAATCTTTTACTCAAAGGAATTTAGCCTTTCATCTAACTTGCAATATTGACACATTTCTGCCAA
* * *
66619 ATGCACAACTAGGC-ATTAA-ACTTTTACTCAAAGGCATTTAGACTTTCATCTAACTTGCAGTAT
66 ATGCACAACTAGACAATTAATA-TTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATAT
*
66682 TGGCACCTTTCTGCCAAATGCAC-AGCTAGGCAA
130 TGGCACCTTTCTGCCAAATGCACTAGCTAGGAAA
* *
66715 TTAATCTTTTACTCAAAGAAATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGAATTTAGCCTTTCATCTAACTTGCAATATTGACACATTTCTGCCAA
66780 ATGCACAACTAGACAATTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
66 ATGCACAACTAGACAATTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
* *
66845 GGCACCTTTCTGCTAAATGCACTA-CTAGGTAA
131 GGCACCTTTCTGCCAAATGCACTAGCTAGGAAA
* * ** *
66877 TTAATCTTTTACTCAAAGGCATTTATCCTTTCATCTAACTTGCAAT-TTGGTACATTTTTGCCAA
1 TTAATCTTTTACTCAAAGGAATTTAGCCTTTCATCTAACTTGCAATATTGACACATTTCTGCCAA
* * *
66941 ATGCACAGCTAGGCAATTAATATTTTACGCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
66 ATGCACAACTAGACAATTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
* * * *
67006 GACACCTTTATGCCAAATGCA-TATCTAGAAAA
131 GGCACCTTTCTGCCAAATGCACTAGCTAGGAAA
* *
67038 TTAATCTTTTACTCAAAGGAATTTAGCCTTTCATCTAACTTGCAATATT-AGCACCTTTCTACCA
1 TTAATCTTTTACTCAAAGGAATTTAGCCTTTCATCTAACTTGCAATATTGA-CACATTTCTGCCA
* *
67102 AATG-AAAAGCTAGACAATTAATCTTTTA
65 AATGCACAA-CTAGACAATTAATATTTTA
67130 TTTTAAGAAC
Statistics
Matches: 372, Mismatches: 36, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
160 2 0.01
161 219 0.59
162 149 0.40
163 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (163 bp):
TTAATCTTTTACTCAAAGGAATTTAGCCTTTCATCTAACTTGCAATATTGACACATTTCTGCCAA
ATGCACAACTAGACAATTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT
GGCACCTTTCTGCCAAATGCACTAGCTAGGAAA
Found at i:67123 original size:242 final size:242
Alignment explanation
Indices: 66554--67129 Score: 861
Period size: 242 Copynumber: 2.4 Consensus size: 242
66544 TGTTAATCAT
* * *
66554 TTAATCTTTTACTCAAAGGCATTTAGCATTTCATCTAACTTGCAATATTGACACATTTCTTCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTG-CACCTTTCTACCAA
* *
66619 ATGCACAACTAGGC-ATTAAACTTTTACTCAAAGGCATTTAGACTTTCATCTAACTTGCAGTATT
65 ATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAGACTTTCATCTAACTTGCAATATT
* * *
66683 GGCACCTTTCTGCCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGAAATTTAGCCTTTCA
130 GGCACATTTCTGCCAAATGCACAGCTAGGCAATTAATATTTTACGCAAAGAAATTTAGCCTTTCA
* *
66748 TCTAACTTGCAATATTGACACCTTTCTGCCAAATGCACAACTAGACAA
195 TCTAACTTGCAATATTGACACCTTTATGCCAAATGCACAACTAGAAAA
* * *
66796 TTAATATTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCTAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT-GCACCTTTCTACCAA
* * **
66861 ATGCACTACTAGGTAATTAATCTTTTACTCAAAGGCATTTATCCTTTCATCTAACTTGCAAT-TT
65 ATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAGACTTTCATCTAACTTGCAATATT
* * **
66925 GGTACATTTTTGCCAAATGCACAGCTAGGCAATTAATATTTTACGCAAAGGCATTTAGCCTTTCA
130 GGCACATTTCTGCCAAATGCACAGCTAGGCAATTAATATTTTACGCAAAGAAATTTAGCCTTTCA
* *
66990 TCTAACTTGCAATATTGACACCTTTATGCCAAATGCATATCTAGAAAA
195 TCTAACTTGCAATATTGACACCTTTATGCCAAATGCACAACTAGAAAA
*
67038 TTAATCTTTTACTCAAAGGAATTTAGCCTTTCATCTAACTTGCAATATTAGCACCTTTCTACCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATT-GCACCTTTCTACCAA
* *
67103 ATG-AAAAGCTAGACAATTAATCTTTTA
65 ATGCACAA-CTAGGCAATTAATCTTTTA
67130 TTTTAAGAAC
Statistics
Matches: 300, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
241 2 0.01
242 254 0.85
243 44 0.15
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (242 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGCACCTTTCTACCAAA
TGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAGACTTTCATCTAACTTGCAATATTG
GCACATTTCTGCCAAATGCACAGCTAGGCAATTAATATTTTACGCAAAGAAATTTAGCCTTTCAT
CTAACTTGCAATATTGACACCTTTATGCCAAATGCACAACTAGAAAA
Found at i:67573 original size:95 final size:95
Alignment explanation
Indices: 67400--67600 Score: 253
Period size: 95 Copynumber: 2.1 Consensus size: 95
67390 CCATACCATG
* * * *
67400 GTATCGATACTACTATACTATGGTACCGATAATATCTTTCAGTATCGATACCATTTTGGCGTTCT
1 GTATCGATACTACTATACTATGGTACCGATAATACCTTTCAATATCGATACCATTTTGACATTCT
* * *
67465 GGAATCCATGGTATCGATACCTTTCTCCTA
66 AGAATCCAAGGTATCGATACATTTCTCCTA
* * *
67495 GTA-CTGATACTTCTATACTATGGTACCGATACTCCCTTTCAATATCGATACCATTTCT-ACATT
1 GTATC-GATACTACTATACTATGGTACCGATAATACCTTTCAATATCGATACCATTT-TGACATT
* * *
67558 CTAGATTCCAAGGTATTGATACATTTCTCTTA
64 CTAGAATCCAAGGTATCGATACATTTCTCCTA
67590 GTATCGATACT
1 GTATCGATACT
67601 CACAACAATA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
94 1 0.01
95 87 0.97
96 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (95 bp):
GTATCGATACTACTATACTATGGTACCGATAATACCTTTCAATATCGATACCATTTTGACATTCT
AGAATCCAAGGTATCGATACATTTCTCCTA
Found at i:73307 original size:95 final size:95
Alignment explanation
Indices: 73124--73334 Score: 289
Period size: 95 Copynumber: 2.2 Consensus size: 95
73114 ATACCGACAA
* * *
73124 GGTAGTATCGATACCATGGTAAGGGTATCAATATCAGGCAACATCGAATCTAAAATTATTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCAATAACAGGCAACATCGAATCTAAAATTAGTATCAA
* * * *
73189 TATCAGAATGGGATATTAGTACCATAATAT
66 TACCAGAAGGGGATATGAGTACCATAATAG
* * *
73219 GGTAGTATCGATACCATGGTAAGGGTATCAATAACATGCCACATCGAATCTAAAATTGGTATCAA
1 GGTAGTATCGATACCATGGTAAGGGTATCAATAACAGGCAACATCGAATCTAAAATTAGTATCAA
* * *
73284 TACCGGAAGGGGGTATCGA-TACCATAGTAG
66 TACCAGAAGGGGATAT-GAGTACCATAATAG
73314 GGTAGTATCGATACCATGGTA
1 GGTAGTATCGATACCATGGTA
73335 GAGGCATCGA
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 101 0.99
96 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCAATAACAGGCAACATCGAATCTAAAATTAGTATCAA
TACCAGAAGGGGATATGAGTACCATAATAG
Found at i:73833 original size:59 final size:58
Alignment explanation
Indices: 73685--74244 Score: 851
Period size: 59 Copynumber: 9.7 Consensus size: 58
73675 TAAGTGAGCA
* *
73685 AAAATGTTAAGAAATTTATACTAAGTG--TGAATTTTCGTATTGGGCACTTCGTGTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
* * * *
73741 AAAATGTTAAGAAATTTATAGTAAGTGTATGAATTTCTGTATTGGGCACTTCATGTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
73799 AAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
1 -AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
* *
73858 AAAATTTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGTA
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG-C
* *
73917 AAAATGTTAAGAAATTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTCTTGTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
73975 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
*
74033 AAAAATGTTCAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
1 -AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
* * *** * *
74092 AAAAATGTTCAGAAATTCATATTAAGTGTATGAATTTTTTTATTTGGCAATTCGTGTGC
1 -AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
*
74151 AAAA-GTTAA-AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
* *
74207 -AAATCGTTAAGAGATTCATACTATGTGTATGAATTTCC
1 AAAAT-GTTAAGAAATTCATACTAAGTGTATGAATTTCC
74245 ATATGGGAAA
Statistics
Matches: 463, Mismatches: 33, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
55 3 0.01
56 66 0.14
57 9 0.02
58 167 0.36
59 218 0.47
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (58 bp):
AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
Found at i:73872 original size:117 final size:117
Alignment explanation
Indices: 73682--74244 Score: 877
Period size: 117 Copynumber: 4.8 Consensus size: 117
73672 CACTAAGTGA
* *
73682 GCAAAAATGTTAAGAAATTTATACTAAGTG--TGAATTTTCGTATTGGGCACTTCGTGTGCAAAA
1 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGCAAAA
* * * *
73745 TGTTAAGAAATTTATAGTAAGTGTATGAATTTCTGTATTGGGCACTTCATGT
66 TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
73797 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGCAAAA
1 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGCAAAA
*
73862 TTTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
66 TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
* * *
73914 GTAAAAATGTTAAGAAATTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTCTTGTGCAAAA
1 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGCAAAA
73979 TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
66 TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
*
74031 GCAAAAATGTTCAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGCAAAA
1 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC-AAA
* * *** * *
74096 ATGTTCAGAAATTCATATTAAGTGTATGAATTTTTTTATTTGGCAATTCGTGT
65 ATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
*
74149 GC-AAAA-GTTAA-AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGC-AAA
1 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGCAAAA
* *
74210 TCGTTAAGAGATTCATACTATGTGTATGAATTTCC
66 T-GTTAAGAAATTCATACTAAGTGTATGAATTTCC
74245 ATATGGGAAA
Statistics
Matches: 414, Mismatches: 30, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
113 4 0.01
114 27 0.07
115 75 0.18
116 4 0.01
117 253 0.61
118 51 0.12
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (117 bp):
GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGCAAAA
TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
Found at i:80627 original size:95 final size:94
Alignment explanation
Indices: 80409--80631 Score: 259
Period size: 94 Copynumber: 2.4 Consensus size: 94
80399 ATACAGACAA
** * * **
80409 GGTAGTATAAATACCATGGTAATGGTATCGATATTAGGCAACATCGAATCAAAAATTGGTATCGA
1 GGTAGTATCGATACCAGGGTAAGGGTATCGATACCAGGCAACATCGAATCAAAAATTGGTATCGA
* ** *
80474 TATCAGAAGGGGTATCGACACCATAGTAT
66 TACCAGAAGGGGTATCGACAAAATAATAT
* * * * *
80503 GGTAGTATCGATACCATGGTAAGGTTATCGATACCAGGCCACATCTAATCTAAAATTGGTATCGA
1 GGTAGTATCGATACCAGGGTAAGGGTATCGATACCAGGCAACATCGAATCAAAAATTGGTATCGA
* *
80568 TACCATAATGGGGTATCGATAAAATAATA-
66 TACCAGAA-GGGGTATCGACAAAATAATAT
*
80597 GGATAGTATCGATACCAGGGTAGGGGTATCGATAC
1 GG-TAGTATCGATACCAGGGTAAGGGTATCGATAC
80632 TGAAGAGCTA
Statistics
Matches: 109, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
94 64 0.59
95 45 0.41
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (94 bp):
GGTAGTATCGATACCAGGGTAAGGGTATCGATACCAGGCAACATCGAATCAAAAATTGGTATCGA
TACCAGAAGGGGTATCGACAAAATAATAT
Found at i:80965 original size:58 final size:58
Alignment explanation
Indices: 80890--81393 Score: 798
Period size: 58 Copynumber: 8.7 Consensus size: 58
80880 TAAGTGAGCA
* * *
80890 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCATATTGGGCACTTTGTGTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
* *
80948 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTCGTTTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
* *
81006 AAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTCCATATTGGGCACTTCGTGTGC
1 -AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
81065 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
* * *
81123 AAAAATGTTAAGAAATTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTCATGAGC
1 -AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
*
81182 AAAATGTTAAGAAATTCATACTGAGTGTATGAATTTCCGTATTGGG-ATCTTCGTGTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCA-CTTCGTGTGC
*
81240 AAAAATGTTAAGAAATTTC-TACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGT
1 -AAAATGTTAAGAAA-TTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
* *
81299 AAAA-GTTAAGAAATTCATACTAAATGTATGAATTTCCGTATTGGGCACTTTGTGTGC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
* *
81356 AAATTGTTAAGAGATTCATACTAAGTGTATGAATTTCC
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCC
81394 ATATGAGAAA
Statistics
Matches: 414, Mismatches: 24, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
56 3 0.01
57 50 0.12
58 198 0.48
59 159 0.38
60 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (58 bp):
AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
Found at i:81048 original size:117 final size:117
Alignment explanation
Indices: 80887--81397 Score: 832
Period size: 117 Copynumber: 4.4 Consensus size: 117
80877 CACTAAGTGA
* *
80887 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCATATTGGGCACTTTGTGTGCAAAA
1 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTCGTGTGCAAAA
* *
80952 TGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTCGTTT
66 TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
*
81004 GCAAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTCCATATTGGGCACTTCGTGTGCAAAA
1 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTCGTGTGCAAAA
81069 TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
66 TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
* * * *
81121 GCAAAAATGTTAAGAAATTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTCATGAGCAAAA
1 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTCGTGTGCAAAA
*
81186 TGTTAAGAAATTCATACTGAGTGTATGAATTTCCGTATTGGG-ATCTTCGTGT
66 TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCA-CTTCGTGT
* *
81238 GCAAAAATGTTAAGAAATTTC-TACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGTAAA
1 GCAAAAATGTTAAGAAA-TTCATACTAAGTGTATGAATTTCCATATTGGGCACTTCGTGTGCAAA
* *
81302 A-GTTAAGAAATTCATACTAAATGTATGAATTTCCGTATTGGGCACTTTGTGT
65 ATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
* *
81354 GC-AAATTGTTAAGAGATTCATACTAAGTGTATGAATTTCCATAT
1 GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATAT
81398 GAGAAATGTG
Statistics
Matches: 369, Mismatches: 21, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
114 3 0.01
115 35 0.09
116 49 0.13
117 279 0.76
118 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (117 bp):
GCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTCGTGTGCAAAA
TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGT
Found at i:83616 original size:58 final size:58
Alignment explanation
Indices: 83529--83640 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
83519 AATCCCATAT
* * * ** * *
83529 AGAAACAGAACAGTGAATTAGTCCTATGCAGAGTTGGAATGGGGAATTAATCCTTTAA
1 AGAAACAGAAAAGTGAATTAATCCCATGCAGAGTCAGAACGGGAAATTAATCCTTTAA
83587 AGAAACAGAATAAG-GAATTAATCCCATGCAGAGTCAGAACGGGAAATTAATCCT
1 AGAAACAGAA-AAGTGAATTAATCCCATGCAGAGTCAGAACGGGAAATTAATCCT
83641 ATGTAGAGTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
58 44 0.96
59 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (58 bp):
AGAAACAGAAAAGTGAATTAATCCCATGCAGAGTCAGAACGGGAAATTAATCCTTTAA
Found at i:83624 original size:29 final size:29
Alignment explanation
Indices: 83600--83705 Score: 133
Period size: 29 Copynumber: 3.7 Consensus size: 29
83590 AACAGAATAA
83600 GGAATTAATCCCATGCAGAGTCAGAAC-G
1 GGAATTAATCCCATGCAGAGTCAGAACAG
* * * *
83628 GGAAATTAATCCTATGTAGAGTCATAACGG
1 GG-AATTAATCCCATGCAGAGTCAGAACAG
* * *
83658 GGAATTAATCCCATGTAAAGTCATAACAG
1 GGAATTAATCCCATGCAGAGTCAGAACAG
83687 GGAATTAATCCCATGCAGA
1 GGAATTAATCCCATGCAGA
83706 ATCAAGAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.03
29 63 0.93
30 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (29 bp):
GGAATTAATCCCATGCAGAGTCAGAACAG
Found at i:89549 original size:13 final size:13
Alignment explanation
Indices: 89533--89557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89523 AAAGTCAATA
89533 GTCAATGGTCAAG
1 GTCAATGGTCAAG
89546 GTCAATGGTCAA
1 GTCAATGGTCAA
89558 CGATCAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (13 bp):
GTCAATGGTCAAG
Found at i:89549 original size:20 final size:20
Alignment explanation
Indices: 89520--89557 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89510 AAATTCATCA
89520 GTCAAAGTCAATAGTCAATG
1 GTCAAAGTCAATAGTCAATG
* *
89540 GTCAAGGTCAATGGTCAA
1 GTCAAAGTCAATAGTCAA
89558 CGATCAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (20 bp):
GTCAAAGTCAATAGTCAATG
Found at i:89564 original size:20 final size:20
Alignment explanation
Indices: 89521--89564 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
89511 AATTCATCAG
* *
89521 TCAAAGTCAATAGTCAATGG
1 TCAAAGTCAATAGTCAACGA
* *
89541 TCAAGGTCAATGGTCAACGA
1 TCAAAGTCAATAGTCAACGA
89561 TCAA
1 TCAA
89565 CAACCAATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (20 bp):
TCAAAGTCAATAGTCAACGA
Found at i:90557 original size:22 final size:22
Alignment explanation
Indices: 90531--90589 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
90521 CCTTATTTGG
* *
90531 AGTATAGATACTACCATCTTGT
1 AGTATCGATACTACCATATTGT
* * *
90553 AGTATCTATACTATCGTATTGT
1 AGTATCGATACTACCATATTGT
90575 AGTATCGATACTACC
1 AGTATCGATACTACC
90590 CTTGAGTATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (22 bp):
AGTATCGATACTACCATATTGT
Found at i:96016 original size:30 final size:31
Alignment explanation
Indices: 95982--96047 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
95972 CAAGTCTTAG
*
95982 AAAATTTGGG-GACCATTTTATAAATTTTGA
1 AAAATTTGGGAGACCAATTTATAAATTTTGA
* * *
96012 AAAA-TTGGGAGATCAATTTGTAAATTTTGG
1 AAAATTTGGGAGACCAATTTATAAATTTTGA
96042 AAAATT
1 AAAATT
96048 GATGGGTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 5 0.17
30 24 0.80
31 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (31 bp):
AAAATTTGGGAGACCAATTTATAAATTTTGA
Found at i:96716 original size:59 final size:59
Alignment explanation
Indices: 96652--97207 Score: 371
Period size: 59 Copynumber: 9.5 Consensus size: 59
96642 ATTACCGAAT
* * *
96652 GGCACTGTGTGTGCTAAAATGATAAGGAAATCATACTGTGTGTATAGATTTCCATAT-G
1 GGCACTGTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAG
* * ***
96710 GAGCACTGAGTGTGCTAAAA-GATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
1 G-GCACTGTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAG
* * * * * *
96769 GGCATTTTATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAA
1 GGCACTGTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAG
* ** * * *** *
96828 AGCACTAAGGGTGCTACAAA-GATAAGGAAATCATATTGAAAATATGGATTTCCAAATAG
1 GGCACTGTGTGTGCTA-AAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAG
* * * * * *
96887 GGCATTTTATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAA
1 GGCACTGTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAG
* * ** * * * ***
96946 AGCATTAAGGGTACTACAAA-GATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
1 GGCACTGTGTGTGCTA-AAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAG
* * * * * * *
97005 GGCATTTTATGTGCTAAAATGGTAAAGG-AATCGTACTAAGTGTATGGATTTCCAGATAA
1 GGCACTGTGTGTGCTAAAATGAT-AAGGAAATCATACTGAGTGTATGGATTTCCAGATAG
* ** * * * * *
97064 AGCACTAAGGGTGCTACAAA-GATAAGAAAATCATACT-AATGGTATGGATTTTCACATAG
1 GGCACTGTGTGTGCTA-AAATGATAAGGAAATCATACTGAGT-GTATGGATTTCCAGATAG
* * * ** * * **
97123 GGCA-TTTCATGTGCTAAAATTATAACAAAATCATACT-AATGGTATGAATTT-TTGAATAG
1 GGCACTGT-GTGTGCTAAAATGATAAGGAAATCATACTGAGT-GTATGGATTTCCAG-ATAG
97182 GGCACT-TCGTGTGCTAAAATGA-AAGG
1 GGCACTGT-GTGTGCTAAAATGATAAGG
97208 GGAAGCATAT
Statistics
Matches: 381, Mismatches: 102, Indels: 30
0.74 0.20 0.06
Matches are distributed among these distances:
58 62 0.16
59 305 0.80
60 14 0.04
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (59 bp):
GGCACTGTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCAGATAG
Found at i:97161 original size:118 final size:118
Alignment explanation
Indices: 96661--97142 Score: 743
Period size: 118 Copynumber: 4.1 Consensus size: 118
96651 TGGCACTGTG
* * * * * ** * *
96661 TGTGCTAAAATGATAAGGAAATCATACTGTGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTAAGGGTGCT
96726 A-AAAGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
66 ACAAAGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
96778 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTAAGGGTGCT
1 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTAAGGGTGCT
*
96843 ACAAAGATAAGGAAATCATATTGAAAATATGGATTTCCAAATAGGGCATTTTA
66 ACAAAGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
* *
96896 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCATTAAGGGTACT
1 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTAAGGGTGCT
96961 ACAAAGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
66 ACAAAGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
* * *
97014 TGTGCTAAAATGGTAAAGGAATCGTACTAAGTGTATGGATTTCCAGATAAAGCACTAAGGGTGCT
1 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTAAGGGTGCT
* * ** * * *
97079 ACAAAGATAAGAAAATCATACT-AATGGTATGGATTTTCACATAGGGCATTTCA
66 ACAAAGATAAGGAAATCATATTGAA-AATATGGATTTCCAGATAGGGCATTTTA
97132 TGTGCTAAAAT
1 TGTGCTAAAAT
97143 TATAACAAAA
Statistics
Matches: 338, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
117 59 0.17
118 279 0.83
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (118 bp):
TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGATAAAGCACTAAGGGTGCT
ACAAAGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
Found at i:97414 original size:43 final size:45
Alignment explanation
Indices: 97336--97430 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 45
97326 AAATGAGGTT
* *
97336 ATGGAAAGTATATTGGTAAACTAAGCTTACGAGCTTATGGAAT-A
1 ATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAA
* *
97380 ATGGTAAGTGTATTGGTAAAATAAG-TTACGAGCTTATGGGATAA
1 ATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAA
97424 ATGGTAA
1 ATGGTAA
97431 ATTTATTGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 16 0.35
44 30 0.65
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (45 bp):
ATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAA
Found at i:103699 original size:498 final size:497
Alignment explanation
Indices: 102760--103758 Score: 1946
Period size: 498 Copynumber: 2.0 Consensus size: 497
102750 CCTTAGAATG
102760 GTTGAACCTAATACATAATCTACCATTCAAGCAGTAATTTCTTGTGAAGACAGCTACCATTCAAA
1 GTTGAACCTAATACATAATCTACCATTCAAGCAGTAATTTCTTGTGAAGACAGCTACCATTCAAA
102825 TTAGTATCAAATAAAGTACTCAAACACCTTACAAAATCCATAGATGTATGCTAGTTATGTTGACA
66 TTAGTATCAAATAAAGTACTCAAACACCTTACAAAATCCATAGATGTATGCTAGTTATGTTGACA
102890 CATTTACACAACTTACATTTTTTCCAAATAGATAGGTCATCACATGAATGAGATCTTGAGAGTAG
131 CATTTACACAACTTACATTTTTTCCAAATAGATAGGTCATCACATGAATGAGATCTTGAGAGTAG
102955 ATGCTATAAAATCAGATCTATGCATTGGTTGCATCTACCTTTTCACATCTTTATAGACTATAAAA
196 ATGCTATAAAATCAGATCTATGCATTGGTTGCATCTACCTTTTCACATCTTTATAGACTATAAAA
*
103020 ACAAACCCAAAAGAAATCGTCCGGTATATCCCAATTTGTGCAAAGGGTGCCATGGCAATGCCATT
261 ACAAACCCAAAAGAAATCGTCCGCTATATCCCAATTTGTGCAAAGGGTGCCATGGCAATGCCATT
*
103085 AGTATGGCTTGCAGAAAAAACTTGAGTAGTTTACCAAGCAAGAATATAAATTTTTGACTAATGAG
326 AGTATGGCTTGCAGAAAAAACTTGAGTAGTTTACCAAGCAAGAATACAAATTTTTGACTAATGAG
103150 AATATATTTACAACCTATTGTTAGGAGTGTTTGTAGATTTATAGCTGCATCTGCTCAATATTACG
391 AATATATTTACAACCTATTGTTAGGAGTGTTTGTAGATTTATAGCTGCATCTGCTCAATATTAC-
103215 AAAA-CATCTTAATATAACTAGCTTTAGGAAAAACAAGAAAGA
455 AAAACCATCTTAATATAACTAGCTTTAGGAAAAACAAGAAAGA
103257 GTTGAACCTAATACATAATCTACCATTCAAGCAGTAATTTCTTGTGAAGACAGCTACCATTCAAA
1 GTTGAACCTAATACATAATCTACCATTCAAGCAGTAATTTCTTGTGAAGACAGCTACCATTCAAA
103322 TTAGTATCAAATAAAGTACTCAAACACCTTACAAAATCCATAGATGTATGCTAGTTATGTTGACA
66 TTAGTATCAAATAAAGTACTCAAACACCTTACAAAATCCATAGATGTATGCTAGTTATGTTGACA
103387 CATTTACACAACTTACATTTTTTTCCAAATAGATAGGTCATCACATGAATGAGATCTTGAGAGTA
131 CATTTACACAACTTACA-TTTTTTCCAAATAGATAGGTCATCACATGAATGAGATCTTGAGAGTA
103452 GATGCTATAAAATCAGATCTATGCATTGGTTGCATCTACCTTTTCACATCTTTATAGACTATAAA
195 GATGCTATAAAATCAGATCTATGCATTGGTTGCATCTACCTTTTCACATCTTTATAGACTATAAA
103517 AACAAACCCAAAAGAAATCGTCCGCTATATCCCAATTTGTGCAAAGGGTGCCATGGCAATGCCAT
260 AACAAACCCAAAAGAAATCGTCCGCTATATCCCAATTTGTGCAAAGGGTGCCATGGCAATGCCAT
103582 TAGTATGGCTTGCAGAAAAAACTTGAGTAGTTTACCAAGCAAGAATACAAATTTTTGACTAATGA
325 TAGTATGGCTTGCAGAAAAAACTTGAGTAGTTTACCAAGCAAGAATACAAATTTTTGACTAATGA
*
103647 GAATATATTTACAACCTATTGTTAGGAGTGTTTGTAGATTTATAGTTGCATCTGCTCAATATTAC
390 GAATATATTTACAACCTATTGTTAGGAGTGTTTGTAGATTTATAGCTGCATCTGCTCAATATTAC
103712 AAAACCATCTTAATATAACTAGCTTTAGGAAAAACAAGAAAGA
455 AAAACCATCTTAATATAACTAGCTTTAGGAAAAACAAGAAAGA
103755 GTTG
1 GTTG
103759 TAAACATTAG
Statistics
Matches: 497, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
497 151 0.30
498 346 0.70
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (497 bp):
GTTGAACCTAATACATAATCTACCATTCAAGCAGTAATTTCTTGTGAAGACAGCTACCATTCAAA
TTAGTATCAAATAAAGTACTCAAACACCTTACAAAATCCATAGATGTATGCTAGTTATGTTGACA
CATTTACACAACTTACATTTTTTCCAAATAGATAGGTCATCACATGAATGAGATCTTGAGAGTAG
ATGCTATAAAATCAGATCTATGCATTGGTTGCATCTACCTTTTCACATCTTTATAGACTATAAAA
ACAAACCCAAAAGAAATCGTCCGCTATATCCCAATTTGTGCAAAGGGTGCCATGGCAATGCCATT
AGTATGGCTTGCAGAAAAAACTTGAGTAGTTTACCAAGCAAGAATACAAATTTTTGACTAATGAG
AATATATTTACAACCTATTGTTAGGAGTGTTTGTAGATTTATAGCTGCATCTGCTCAATATTACA
AAACCATCTTAATATAACTAGCTTTAGGAAAAACAAGAAAGA
Found at i:107049 original size:23 final size:23
Alignment explanation
Indices: 107023--107106 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
107013 CTTGAATAAA
107023 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
107046 TGCACCGAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
107069 TGCACTGAAGTGCCACGTAAAAA
1 TGCACCGAAGTGCCACGTAGAAT
107092 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
107107 TATAAGATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:107925 original size:21 final size:21
Alignment explanation
Indices: 107899--107956 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
107889 AAATTGGTCT
107899 TAGGGTATCGGTACCCATTCA
1 TAGGGTATCGGTACCCATTCA
*
107920 TAGGGTATCGATACCCATTCA
1 TAGGGTATCGGTACCCATTCA
*
107941 TAGGGTATCAGTACCC
1 TAGGGTATCGGTACCC
107957 CTTGCCTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (21 bp):
TAGGGTATCGGTACCCATTCA
Found at i:108749 original size:22 final size:21
Alignment explanation
Indices: 108718--108758 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
108708 TTTACCCTTA
108718 ATTTAATT-AAATTATTAAATT
1 ATTTAATTAAAATT-TTAAATT
108739 ATTTATATTAAAATTTTAAA
1 ATTTA-ATTAAAATTTTAAA
108759 CTTTAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAATTAAAATTTTAAATT
Found at i:109058 original size:17 final size:17
Alignment explanation
Indices: 109028--109060 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
109018 GTAGTTTACC
109028 CATTATTTAATTGTATT
1 CATTATTTAATTGTATT
109045 CATT-TTTAAGTTGTAT
1 CATTATTTAA-TTGTAT
109061 ATTCGAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
CATTATTTAATTGTATT
Found at i:109682 original size:30 final size:30
Alignment explanation
Indices: 109612--109751 Score: 115
Period size: 30 Copynumber: 4.7 Consensus size: 30
109602 AATAAAATTA
* * * * *
109612 CATAAAAGAGAATACCAAAAAATATAATAT
1 CATAAAATAAAATAACATAAAATACAATAT
109642 CATAAAATTAAAATAACATAAAATACAATAT
1 CATAAAA-TAAAATAACATAAAATACAATAT
* * * * *
109673 CATAAATTAATATAATATAAAATATAATAC
1 CATAAAATAAAATAACATAAAATACAATAT
*
109703 CATAAAATACAAT-ACA-AGAAATTACAA-AT
1 CATAAAATAAAATAACATA-AAA-TACAATAT
* *
109732 CAGAAAATAAAATTACATAA
1 CATAAAATAAAATAACATAA
109752 TTATGGTTCA
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
28 1 0.01
29 17 0.20
30 44 0.51
31 25 0.29
ACGTcount: A:0.63, C:0.10, G:0.03, T:0.24
Consensus pattern (30 bp):
CATAAAATAAAATAACATAAAATACAATAT
Found at i:116779 original size:2 final size:2
Alignment explanation
Indices: 116772--116812 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
116762 TTATGTTATG
116772 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116813 GTTTCTCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:118620 original size:16 final size:16
Alignment explanation
Indices: 118599--118631 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
118589 GTGTGTGTTT
118599 TAAGTGTGTTTTAAAA
1 TAAGTGTGTTTTAAAA
118615 TAAGTGTGTTTTAAAA
1 TAAGTGTGTTTTAAAA
118631 T
1 T
118632 GATAAATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
TAAGTGTGTTTTAAAA
Found at i:126963 original size:18 final size:18
Alignment explanation
Indices: 126936--126970 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
126926 GAATTTTCAT
*
126936 CTTTACATTTGTATTTAC
1 CTTTACATTTATATTTAC
*
126954 CTTTATATTTATATTTA
1 CTTTACATTTATATTTA
126971 TATTAATTTA
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:0.26, C:0.11, G:0.03, T:0.60
Consensus pattern (18 bp):
CTTTACATTTATATTTAC
Found at i:130497 original size:14 final size:15
Alignment explanation
Indices: 130474--130510 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
130464 AATTATAATA
130474 ATAATAATATATTAT
1 ATAATAATATATTAT
130489 ATAAT-ATATATTAT
1 ATAATAATATATTAT
130503 AT-ATAATA
1 ATAATAATA
130511 AATACAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 14 0.67
15 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAATAATATATTAT
Found at i:130749 original size:35 final size:34
Alignment explanation
Indices: 130688--130803 Score: 144
Period size: 35 Copynumber: 3.4 Consensus size: 34
130678 TCTGATCTTG
*
130688 CTTCACTACTC-TCCGTGAAGGCTGGATCGAATCA
1 CTTCACTACTCTTCCGTGAAGGCTGGAT-GAATTA
* * *
130722 CTTCATTACTCTTACGTGAAGGTTGGATTGAATTA
1 CTTCACTACTCTTCCGTGAAGGCTGGA-TGAATTA
* *
130757 CTTCACTACTCTTCCGTGAAGGCTAGATGATTTA
1 CTTCACTACTCTTCCGTGAAGGCTGGATGAATTA
*
130791 CTTCATTACTCTT
1 CTTCACTACTCTT
130804 TAGTGAATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 28 0.40
35 41 0.59
36 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (34 bp):
CTTCACTACTCTTCCGTGAAGGCTGGATGAATTA
Found at i:130810 original size:69 final size:69
Alignment explanation
Indices: 130688--130819 Score: 187
Period size: 69 Copynumber: 1.9 Consensus size: 69
130678 TCTGATCTTG
* *
130688 CTTCACTACTCTCCGTGAAGGCTGGATCGAATCACTTCATTACTCTTACGTGAAGGTTGGATTGA
1 CTTCACTACTCTCCGTGAAGGCTAGATCGAATCACTTCATTACTCTTACGTGAAGATTGGATTGA
130753 ATTA
66 ATTA
* * *
130757 CTTCACTACTCTTCCGTGAAGGCTAGAT-GATTTACTTCATTACTCTTTA-GTGAATATTGGATT
1 CTTCACTACTC-TCCGTGAAGGCTAGATCGAATCACTTCATTACTC-TTACGTGAAGATTGGATT
130820 TGTATTACAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
69 38 0.68
70 18 0.32
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (69 bp):
CTTCACTACTCTCCGTGAAGGCTAGATCGAATCACTTCATTACTCTTACGTGAAGATTGGATTGA
ATTA
Found at i:130879 original size:36 final size:36
Alignment explanation
Indices: 130839--130939 Score: 134
Period size: 34 Copynumber: 2.9 Consensus size: 36
130829 AAATGATTTT
* *
130839 CTTCACTACTCTTCCGTGAAGGTTGAATTTGATTGA
1 CTTCACTACTCTTTCGTGAAGGTTGGATTTGATTGA
* * * *
130875 CTTCACTACTCTTTTGTGATGGTTGGA--TGGTTTA
1 CTTCACTACTCTTTCGTGAAGGTTGGATTTGATTGA
130909 CTTCACTACTCTTTCGTGAAGGTTGGATTTG
1 CTTCACTACTCTTTCGTGAAGGTTGGATTTG
130940 TATTACAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
34 30 0.55
36 25 0.45
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.43
Consensus pattern (36 bp):
CTTCACTACTCTTTCGTGAAGGTTGGATTTGATTGA
Found at i:130935 original size:118 final size:116
Alignment explanation
Indices: 130722--130977 Score: 343
Period size: 118 Copynumber: 2.2 Consensus size: 116
130712 GATCGAATCA
* * *
130722 CTTCATTACTCTTACGTGAAGGTTGGATTGAATTACTTCACTACTCTTCCGTGAAGGCTAGATGA
1 CTTCACTACTCTTCCGTGAAGGTTGAATTGAATTACTTCACTACTCTTCCGTGAAGGCTAGATGA
* * *
130787 TTTACTTCATTACTCTTTAGTGAATATTGGATTTGTATTACAAAATGATTTT
66 TTTACTTCACTACTCTTTAGTGAAGATTGGATTTGTATTACAAAA-GATTTG
** * * *
130839 CTTCACTACTCTTCCGTGAAGGTTGAATTTG-ATTGACTTCACTACTCTTTTGTGATGGTTGGAT
1 CTTCACTACTCTTCCGTGAAGGTTGAA-TTGAATT-ACTTCACTACTCTTCCGTGAAGGCTAGAT
* * *
130903 GGTTTACTTCACTACTCTTTCGTGAAGGTTGGATTTGTATTACAAAAGATTTG
64 GATTTACTTCACTACTCTTTAGTGAAGATTGGATTTGTATTACAAAAGATTTG
130956 CTTCCACTACTCTTCCGTGAAG
1 CTT-CACTACTCTTCCGTGAAG
130978 ATCTTACGAA
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
117 35 0.29
118 87 0.71
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (116 bp):
CTTCACTACTCTTCCGTGAAGGTTGAATTGAATTACTTCACTACTCTTCCGTGAAGGCTAGATGA
TTTACTTCACTACTCTTTAGTGAAGATTGGATTTGTATTACAAAAGATTTG
Found at i:131062 original size:30 final size:30
Alignment explanation
Indices: 131028--131084 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
131018 AGACTAACAG
* *
131028 ATGACTCGAAGGATTTACAAATTACCCGAA
1 ATGACCCGAAGGATTTACAAATGACCCGAA
* *
131058 ATGACCCGGAGGTTTTACAAATGACCC
1 ATGACCCGAAGGATTTACAAATGACCC
131085 AGAGGTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (30 bp):
ATGACCCGAAGGATTTACAAATGACCCGAA
Found at i:131081 original size:20 final size:20
Alignment explanation
Indices: 131056--131119 Score: 119
Period size: 20 Copynumber: 3.2 Consensus size: 20
131046 AAATTACCCG
131056 AAATGACCCGGAGGTTTTAC
1 AAATGACCCGGAGGTTTTAC
*
131076 AAATGACCCAGAGGTTTTAC
1 AAATGACCCGGAGGTTTTAC
131096 AAATGACCCGGAGGTTTTAC
1 AAATGACCCGGAGGTTTTAC
131116 AAAT
1 AAAT
131120 TTGTTAGTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (20 bp):
AAATGACCCGGAGGTTTTAC
Found at i:131343 original size:19 final size:19
Alignment explanation
Indices: 131308--131355 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
131298 CAATTAAATG
*
131308 TATGAAATGCATTTTCTTT
1 TATGAAATGCATGTTCTTT
131327 TATGCAAATG-ATGTTC--T
1 TATG-AAATGCATGTTCTTT
131344 TATG-AATGCATG
1 TATGAAATGCATG
131356 AATGTCGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 4 0.15
16 3 0.12
17 5 0.19
19 9 0.35
20 5 0.19
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (19 bp):
TATGAAATGCATGTTCTTT
Found at i:138157 original size:10 final size:10
Alignment explanation
Indices: 138142--138169 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
138132 TAATTTTACC
138142 TAAATATATA
1 TAAATATATA
138152 TAAATATATA
1 TAAATATATA
138162 TAAATATA
1 TAAATATA
138170 CATGTATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAATATATA
Found at i:138506 original size:26 final size:26
Alignment explanation
Indices: 138476--138534 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
138466 GCCACCGTTA
138476 GCCGCCGATCGTCAGTGTCGACAGTC
1 GCCGCCGATCGTCAGTGTCGACAGTC
138502 GCCGCCGATCGTCAGTGTCGACAGTC
1 GCCGCCGATCGTCAGTGTCGACAGTC
*
138528 ACCGCCG
1 GCCGCCG
138535 GCCATCACTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.15, C:0.37, G:0.31, T:0.17
Consensus pattern (26 bp):
GCCGCCGATCGTCAGTGTCGACAGTC
Found at i:138861 original size:56 final size:56
Alignment explanation
Indices: 138800--138923 Score: 196
Period size: 56 Copynumber: 2.2 Consensus size: 56
138790 TCTCTCCCTT
*
138800 TTCTTTCGTTATTTTTTCTGTTCAATCTTTC-TCTCCGTTGCTCTCTGTCCTCTTTC
1 TTCTTTCATTATTTTTTCTGTTCAATC-TTCATCTCCGTTGCTCTCTGTCCTCTTTC
* * *
138856 TTCTTTCATTATTTTTTCTGTTCGATCTTCATTTCCGTTGCTCTTTGTCCTCTTTC
1 TTCTTTCATTATTTTTTCTGTTCAATCTTCATCTCCGTTGCTCTCTGTCCTCTTTC
138912 TTCTTTCATTAT
1 TTCTTTCATTAT
138924 AGGTTAGGGG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
55 3 0.05
56 60 0.95
ACGTcount: A:0.07, C:0.26, G:0.08, T:0.59
Consensus pattern (56 bp):
TTCTTTCATTATTTTTTCTGTTCAATCTTCATCTCCGTTGCTCTCTGTCCTCTTTC
Found at i:139390 original size:14 final size:14
Alignment explanation
Indices: 139353--139390 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
139343 TCTTTTAATA
139353 ATAAT-AATATATT
1 ATAATAAATATATT
139366 AT-ATAATATATATT
1 ATAATAA-ATATATT
139380 ATAATAAATAT
1 ATAATAAATAT
139391 GACACTCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.09
13 3 0.14
14 13 0.59
15 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATAAATATATT
Found at i:140542 original size:20 final size:20
Alignment explanation
Indices: 140517--140568 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
140507 TGGAAATATT
140517 TTTAAATGTTTAGTTTAAAA
1 TTTAAATGTTTAGTTTAAAA
140537 TTTAAATGTTTAGTTTAAAA
1 TTTAAATGTTTAGTTTAAAA
140557 TTTAAATGTTTA
1 TTTAAATGTTTA
140569 ATATTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (20 bp):
TTTAAATGTTTAGTTTAAAA
Found at i:141249 original size:21 final size:22
Alignment explanation
Indices: 141208--141261 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
141198 CTTTTCATTT
* *
141208 AAATCATATTTTTATTGAATAA
1 AAATAATATTTTTATTAAATAA
141230 AAATAATATTTTT-TTAAATAA
1 AAATAATATTTTTATTAAATAA
*
141251 AAATATTATTT
1 AAATAATATTT
141262 CGGGTAGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATAATATTTTTATTAAATAA
Found at i:141946 original size:23 final size:23
Alignment explanation
Indices: 141883--141939 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
141873 GTTTACACAT
141883 ATGTTTATGAATAATAAATGAAC
1 ATGTTTATGAATAATAAATGAAC
** *
141906 ATGTTTATGAATGTTAAATTAAC
1 ATGTTTATGAATAATAAATGAAC
*
141929 ATGTTCATGAA
1 ATGTTTATGAA
141940 CACTAAACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (23 bp):
ATGTTTATGAATAATAAATGAAC
Found at i:143846 original size:59 final size:58
Alignment explanation
Indices: 143776--143896 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 58
143766 TAACAATATA
*
143776 TAAAATCTAATAAA-T-TAATAATGATTAATTAATAATTTAGTATCTCTCTTATTATTTAT
1 TAAAATCTAATAAATTATAATAATGATTAATTAATAATTTAATAT-T-T-TTATTATTTAT
* * *
143835 TAAAATTTAATAAATTAATAATAATTATTAATTAGTAATTTAATATTTTTATTATTTAT
1 TAAAATCTAATAAATT-ATAATAATGATTAATTAATAATTTAATATTTTTATTATTTAT
143894 TAA
1 TAA
143897 TAAACTGATA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
59 27 0.49
60 2 0.04
61 1 0.02
62 25 0.45
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (58 bp):
TAAAATCTAATAAATTATAATAATGATTAATTAATAATTTAATATTTTTATTATTTAT
Found at i:143910 original size:59 final size:62
Alignment explanation
Indices: 143776--143920 Score: 151
Period size: 59 Copynumber: 2.4 Consensus size: 62
143766 TAACAATATA
* * *
143776 TAAAATCTAATAAA-T--TAATAATGATTAATTAATAATTTAGTATCTCTCTTATTATTTAT
1 TAAAAACTAATAAATTAATAATAATTATTAATTAATAATTTAATATCTCTCTTATTATTTAT
** *
143835 TAAAATTTAATAAATTAATAATAATTATTAATTAGTAATTTAATAT-T-T-TTATTATTTAT
1 TAAAAACTAATAAATTAATAATAATTATTAATTAATAATTTAATATCTCTCTTATTATTTAT
* *
143894 TAATAAACTGAT-AATTATTAATTAATT
1 TAA-AAACTAATAAATTAATAA-TAATT
143921 TTTATAATAA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
59 35 0.48
60 12 0.16
61 1 0.01
62 25 0.34
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (62 bp):
TAAAAACTAATAAATTAATAATAATTATTAATTAATAATTTAATATCTCTCTTATTATTTAT
Found at i:147249 original size:2 final size:2
Alignment explanation
Indices: 147244--147296 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
147234 ATATATACGT
147244 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
147286 AC AC AC AC AC A
1 AC AC AC AC AC A
147297 GAGAGAGAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:149085 original size:25 final size:22
Alignment explanation
Indices: 149024--149101 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
149014 TTAAATATCG
149024 AATAATAATATTA-TATTATAA
1 AATAATAATATTATTATTATAA
149045 AATAATAA-ATGGTATTATTATATA
1 AATAATAATAT--TATTATTATA-A
*
149069 AATAATAATACTA-TATTATTAA
1 AATAATAATATTATTATTA-TAA
*
149091 AATAAAAATAT
1 AATAATAATAT
149102 AACAATAAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
20 2 0.04
21 8 0.17
22 17 0.35
23 11 0.23
24 9 0.19
25 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (22 bp):
AATAATAATATTATTATTATAA
Found at i:149158 original size:15 final size:14
Alignment explanation
Indices: 149138--149178 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
149128 TGAATATATC
149138 ATTATAATATTAAGA
1 ATTATAATATTAA-A
149153 ATTATAATATTAAA
1 ATTATAATATTAAA
* *
149167 ATAAAAATATTA
1 ATTATAATATTA
149179 TATTATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
ATTATAATATTAAA
Found at i:161533 original size:2 final size:2
Alignment explanation
Indices: 161526--161559 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
161516 GAAGAGATTG
161526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
161560 GTGGAATCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:166742 original size:20 final size:20
Alignment explanation
Indices: 166717--166770 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
166707 ATATGAGCTA
166717 TGACTTTGCAAAAGGTTGCT
1 TGACTTTGCAAAAGGTTGCT
166737 TGACTTTGCAAAAGGTTGCT
1 TGACTTTGCAAAAGGTTGCT
*
166757 TGACTTTGAAAAAG
1 TGACTTTGCAAAAG
166771 TGTGCCTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (20 bp):
TGACTTTGCAAAAGGTTGCT
Found at i:166858 original size:21 final size:21
Alignment explanation
Indices: 166816--166854 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
166806 CATCAAGCCC
*
166816 TTTATTGAAGCCATGAAATCT
1 TTTATCGAAGCCATGAAATCT
166837 TTTATCGAAGCCAT-AAAT
1 TTTATCGAAGCCATGAAAT
166855 TCTTGCAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (21 bp):
TTTATCGAAGCCATGAAATCT
Done.