Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 116 of 193
Found at i:36961113 original size:23 final size:23
Alignment explanation
Indices: 36961076--36961121 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36961066 CCTTTTATTT
* * *
36961076 TTTCACTCAATTTTCTCTCTAAA
1 TTTCACACAAATTTCTCACTAAA
36961099 TTTCACACAAATTTCTCACTAAA
1 TTTCACACAAATTTCTCACTAAA
36961122 ACTCTCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTCACACAAATTTCTCACTAAA
Found at i:36961296 original size:62 final size:61
Alignment explanation
Indices: 36961213--36961339 Score: 236
Period size: 62 Copynumber: 2.1 Consensus size: 61
36961203 TCTCCATCGA
36961213 TAATAAAATCGAAGTTCATTTGAATATTTTTGTACACATTAGTTTTGGCATATTGTTTCATT
1 TAATAAAATCGAAGTTCATTTGAATATTTTTGTACACATTAGTTTTGGCATATT-TTTCATT
*
36961275 TAATAAAATCGAAGTTCATTTGAATATTTTTGTGCACATTAGTTTTGGCATATTTTTCATT
1 TAATAAAATCGAAGTTCATTTGAATATTTTTGTACACATTAGTTTTGGCATATTTTTCATT
36961336 TAAT
1 TAAT
36961340 TGAGAACCAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 11 0.17
62 53 0.83
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (61 bp):
TAATAAAATCGAAGTTCATTTGAATATTTTTGTACACATTAGTTTTGGCATATTTTTCATT
Found at i:36964271 original size:28 final size:28
Alignment explanation
Indices: 36964219--36964273 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
36964209 ATGCACTTTT
* **
36964219 CGAGCCAAAGTCTAGAATATTGCTCTTA
1 CGAGCCAAAGTCCAGAATAACGCTCTTA
*
36964247 CGAGCCAGAGTCCAGAATAACGCTCTT
1 CGAGCCAAAGTCCAGAATAACGCTCTT
36964274 TTGATCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (28 bp):
CGAGCCAAAGTCCAGAATAACGCTCTTA
Found at i:36964358 original size:28 final size:28
Alignment explanation
Indices: 36964289--36964377 Score: 106
Period size: 28 Copynumber: 3.2 Consensus size: 28
36964279 CCAAAAATAG
*
36964289 AGTATTGCTCTTTCAATCTAGAATACAA
1 AGTATCGCTCTTTCAATCTAGAATACAA
* *
36964317 AATATCACTCTTTCAATCTAGAATACAA
1 AGTATCGCTCTTTCAATCTAGAATACAA
* * * * *
36964345 AGTATCGCTTTTTCGAGCCAGAATACAG
1 AGTATCGCTCTTTCAATCTAGAATACAA
36964373 AGTAT
1 AGTAT
36964378 TTGTTAAGCC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (28 bp):
AGTATCGCTCTTTCAATCTAGAATACAA
Found at i:36967131 original size:2 final size:2
Alignment explanation
Indices: 36967124--36967155 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
36967114 AGTAGTGGGA
36967124 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36967156 AAGAATGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:36970312 original size:41 final size:41
Alignment explanation
Indices: 36970242--36970501 Score: 315
Period size: 41 Copynumber: 6.2 Consensus size: 41
36970232 TCAAGTCATA
* * * *
36970242 AGTCTTCCTTTTTCCATATTCTCAGTCTCATCTCGAGATATG
1 AGTCTTCCTTATT-CATAATCTCATTCTCATCTCGAGACATG
36970284 AGTCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATG
1 AGTCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATG
* *
36970325 AGTCTTCCTTATTCATAGTCTCATTCTAATCTCGAGACATG
1 AGTCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATG
*
36970366 AGTCTTTCTTATTCATAATCTCATTCTCATCTCGAGACATG
1 AGTCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATG
* * * *
36970407 AGTCTTCTTTATTCATAATCCCATGCTCAT-TCCGAGTCATG
1 AGTCTTCCTTATTCATAATCTCATTCTCATCT-CGAGACATG
* * * * * *
36970448 AGTCTTCCATTTTTTACAATTTCTCATGCTCAACCCGAGACATG
1 AGTCTTCC-TTATTCATAA--TCTCATTCTCATCTCGAGACATG
36970492 AGTCTTCCTT
1 AGTCTTCCTT
36970502 TTTATACACC
Statistics
Matches: 191, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 143 0.75
42 19 0.10
43 2 0.01
44 26 0.14
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (41 bp):
AGTCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATG
Found at i:36971346 original size:22 final size:21
Alignment explanation
Indices: 36971299--36971346 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
36971289 GACTTTCGTA
*
36971299 ATTAACTGAATTAATCATCTT
1 ATTAACTGAATTAATCATATT
* * *
36971320 TTTAACCTTAATTAATCTTATT
1 ATTAA-CTGAATTAATCATATT
36971342 ATTAA
1 ATTAA
36971347 TCAATATTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTAACTGAATTAATCATATT
Found at i:36971744 original size:20 final size:21
Alignment explanation
Indices: 36971719--36971763 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
36971709 AAATGGTATA
36971719 GATACCTT-TGATAAAATATT
1 GATACCTTATGATAAAATATT
* *
36971739 GATACCTTATGTTAAAGTATT
1 GATACCTTATGATAAAATATT
36971760 GATA
1 GATA
36971764 TTTTGCCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (21 bp):
GATACCTTATGATAAAATATT
Found at i:36972727 original size:29 final size:30
Alignment explanation
Indices: 36972691--36972769 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 30
36972681 AAAAAAATCT
*
36972691 ATCT-CGTCAAAATAATTTTTTCAGAACAC
1 ATCTACGTCAAAATTATTTTTTCAGAACAC
** *
36972720 ATC-ACGTCAATTTTATTTTTT-AGAACCC
1 ATCTACGTCAAAATTATTTTTTCAGAACAC
*
36972748 ATCTTC-TCAAAATTATTTTTTC
1 ATCTACGTCAAAATTATTTTTTC
36972770 CAAAATAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
28 22 0.55
29 18 0.45
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (30 bp):
ATCTACGTCAAAATTATTTTTTCAGAACAC
Found at i:36973868 original size:27 final size:25
Alignment explanation
Indices: 36973834--36973883 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
36973824 ATTTTTAAAA
36973834 ATTAAAATAAAATTTTTATTATTTAGG
1 ATTAAAATAAAA-TTTTATT-TTTAGG
*
36973861 ATTAAAATATAATTTTATTTTTA
1 ATTAAAATAAAATTTTATTTTTA
36973884 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 7 0.32
27 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTAAAATAAAATTTTATTTTTAGG
Found at i:36982697 original size:157 final size:157
Alignment explanation
Indices: 36982411--36982725 Score: 621
Period size: 157 Copynumber: 2.0 Consensus size: 157
36982401 CCTTTGATAA
*
36982411 CGATAAGCTTGCATAAAAAAGGGTTTTCAGCTAAATATTTTTGTTCTTTTGAGGTTTGTGTTTTG
1 CGATAAGCTTGCATAAAAAAAGGTTTTCAGCTAAATATTTTTGTTCTTTTGAGGTTTGTGTTTTG
36982476 GGACAAACACCTAGTCATGAAAGAAACAACAACAAAATTCCACAATATAAATTCTATAATAGCCT
66 GGACAAACACCTAGTCATGAAAGAAACAACAACAAAATTCCACAATATAAATTCTATAATAGCCT
36982541 CGAAAGAATTTTCTACAAAATTAACAT
131 CGAAAGAATTTTCTACAAAATTAACAT
36982568 CGATAAGCTTGCATAAAAAAAGGTTTTCAGCTAAATATTTTTGTTCTTTTGAGGTTTGTGTTTTG
1 CGATAAGCTTGCATAAAAAAAGGTTTTCAGCTAAATATTTTTGTTCTTTTGAGGTTTGTGTTTTG
36982633 GGACAAACACCTAGTCATGAAAGAAACAACAACAAAATTCCACAATATAAATTCTATAATAGCCT
66 GGACAAACACCTAGTCATGAAAGAAACAACAACAAAATTCCACAATATAAATTCTATAATAGCCT
36982698 CGAAAGAATTTTCTACAAAATTAACAT
131 CGAAAGAATTTTCTACAAAATTAACAT
36982725 C
1 C
36982726 AGCAAGAAGT
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (157 bp):
CGATAAGCTTGCATAAAAAAAGGTTTTCAGCTAAATATTTTTGTTCTTTTGAGGTTTGTGTTTTG
GGACAAACACCTAGTCATGAAAGAAACAACAACAAAATTCCACAATATAAATTCTATAATAGCCT
CGAAAGAATTTTCTACAAAATTAACAT
Found at i:36984209 original size:24 final size:23
Alignment explanation
Indices: 36984189--36984234 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
36984179 ATATATTTAG
36984189 TAAAAATATA-ATTTTATTATTT
1 TAAAAATATATATTTTATTATTT
* *
36984211 TAATAATATATATTTTATAATTT
1 TAAAAATATATATTTTATTATTT
36984234 T
1 T
36984235 GAAGATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TAAAAATATATATTTTATTATTT
Found at i:36992712 original size:18 final size:18
Alignment explanation
Indices: 36992685--36992719 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36992675 AACAACTAAT
* *
36992685 ATGTAGTGACAATTAAAA
1 ATGTAATGACAAGTAAAA
36992703 ATGTAATGACAAGTAAA
1 ATGTAATGACAAGTAAA
36992720 TGCTATGCAT
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:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (18 bp):
ATGTAATGACAAGTAAAA
Found at i:36995012 original size:14 final size:14
Alignment explanation
Indices: 36994980--36995016 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
36994970 ACATAAGATT
36994980 TAAAAG-AAACAAG
1 TAAAAGTAAACAAG
36994993 TAAAAGTAAA-AAG
1 TAAAAGTAAACAAG
36995006 CTAAAAGTAAA
1 -TAAAAGTAAA
36995017 TGTAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.68, C:0.05, G:0.14, T:0.14
Consensus pattern (14 bp):
TAAAAGTAAACAAG
Found at i:37003136 original size:62 final size:62
Alignment explanation
Indices: 37003066--37003205 Score: 235
Period size: 62 Copynumber: 2.2 Consensus size: 62
37003056 CTCTTCCCCA
* * *
37003066 TTTCCCCTTTCCCTTCTCCTTTCTCCTTTCCACCATTGTACTGTTTATTAGCCCCTTTTCCC
1 TTTCCCCTTTCCCTTCCCCTTTCTCCTTTCCACCATTGTACTATTTATTAGCCCCTTATCCC
*
37003128 TTTCCCCTTTCCTTTCCCCTTTCTCCTTTCCACCATTGTACTATTTATTAGCCCCTTATCCC
1 TTTCCCCTTTCCCTTCCCCTTTCTCCTTTCCACCATTGTACTATTTATTAGCCCCTTATCCC
37003190 TTTCCCCTTTCTCCTT
1 TTTCCCCTTTC-CCTT
37003206 TCCACCATTG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
62 69 0.96
63 3 0.04
ACGTcount: A:0.09, C:0.41, G:0.04, T:0.47
Consensus pattern (62 bp):
TTTCCCCTTTCCCTTCCCCTTTCTCCTTTCCACCATTGTACTATTTATTAGCCCCTTATCCC
Found at i:37003143 original size:12 final size:12
Alignment explanation
Indices: 37003126--37003150 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37003116 GCCCCTTTTC
37003126 CCTTTCCCCTTT
1 CCTTTCCCCTTT
37003138 CCTTTCCCCTTT
1 CCTTTCCCCTTT
37003150 C
1 C
37003151 TCCTTTCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
CCTTTCCCCTTT
Found at i:37003147 original size:19 final size:19
Alignment explanation
Indices: 37003119--37003158 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
37003109 TTTATTAGCC
*
37003119 CCTTTTCCCTTTCCCCTTT
1 CCTTTCCCCTTTCCCCTTT
*
37003138 CCTTTCCCCTTTCTCCTTT
1 CCTTTCCCCTTTCCCCTTT
37003157 CC
1 CC
37003159 ACCATTGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (19 bp):
CCTTTCCCCTTTCCCCTTT
Found at i:37003150 original size:7 final size:7
Alignment explanation
Indices: 37003117--37003158 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
37003107 TGTTTATTAG
37003117 CCCCTTT
1 CCCCTTT
*
37003124 TCCCTTT
1 CCCCTTT
37003131 CCCCTTT
1 CCCCTTT
37003138 --CCTTT
1 CCCCTTT
37003143 CCCCTTT
1 CCCCTTT
*
37003150 CTCCTTT
1 CCCCTTT
37003157 CC
1 CC
37003159 ACCATTGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
5 5 0.17
7 24 0.83
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (7 bp):
CCCCTTT
Found at i:37003591 original size:21 final size:21
Alignment explanation
Indices: 37003553--37003593 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37003543 GTTGATCTTT
* * *
37003553 TTCTTCAATTTTTCTTTTTAA
1 TTCTTCAACTGTTATTTTTAA
37003574 TTCTTCAACTGTTATTTTTA
1 TTCTTCAACTGTTATTTTTA
37003594 TTGGATTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.15, G:0.02, T:0.63
Consensus pattern (21 bp):
TTCTTCAACTGTTATTTTTAA
Found at i:37005431 original size:14 final size:14
Alignment explanation
Indices: 37005412--37005447 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
37005402 GAAAAGTAAT
37005412 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
37005426 TCATTTTCCGGAAA
1 TCATTTTCCAGAAA
*
37005440 CCATTTTC
1 TCATTTTC
37005448 AGTCAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:37006413 original size:20 final size:21
Alignment explanation
Indices: 37006388--37006443 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
37006378 ATTTTATCAT
* *
37006388 AAAAATCATTAGAAAGTA-AA
1 AAAAATCATAAAAAAGTACAA
*
37006408 AAAAATCATAAAAAATTACAA
1 AAAAATCATAAAAAAGTACAA
37006429 AAAAATCATAAAAAA
1 AAAAATCATAAAAAA
37006444 TAAAAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.71, C:0.07, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAAATCATAAAAAAGTACAA
Found at i:37006422 original size:10 final size:10
Alignment explanation
Indices: 37006407--37006444 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
37006397 TAGAAAGTAA
37006407 AAAAAATCAT
1 AAAAAATCAT
37006417 AAAAAATTACA-
1 AAAAAA-T-CAT
37006428 AAAAAATCAT
1 AAAAAATCAT
37006438 AAAAAAT
1 AAAAAAT
37006445 AAAAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 2 0.08
10 14 0.56
11 7 0.28
12 2 0.08
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAATCAT
Found at i:37006422 original size:11 final size:11
Alignment explanation
Indices: 37006406--37006443 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
37006396 TTAGAAAGTA
37006406 AAAAAAATCAT
1 AAAAAAATCAT
* *
37006417 -AAAAAATTAC
1 AAAAAAATCAT
37006427 AAAAAAATCAT
1 AAAAAAATCAT
37006438 AAAAAA
1 AAAAAA
37006444 TAAAAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAATCAT
Found at i:37006513 original size:28 final size:28
Alignment explanation
Indices: 37006481--37006549 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
37006471 ATAAACTTAT
37006481 TAAAAATTATAAAT-ATCATAAAAAATAA
1 TAAAAATTATAAATGAT-ATAAAAAATAA
* **
37006509 TAAAAACTTA-AAATGATATAATAAATTC
1 TAAAAA-TTATAAATGATATAAAAAATAA
*
37006537 TATAAATTATAAA
1 TAAAAATTATAAA
37006550 AAAATAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.09
28 26 0.76
29 5 0.15
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (28 bp):
TAAAAATTATAAATGATATAAAAAATAA
Found at i:37007340 original size:10 final size:10
Alignment explanation
Indices: 37007217--37007385 Score: 73
Period size: 10 Copynumber: 17.6 Consensus size: 10
37007207 CTAATAAATG
37007217 ATTTATTATA
1 ATTTATTATA
*
37007227 ATTT-TTTTA
1 ATTTATTATA
*
37007236 TATTTGTTAT-
1 -ATTTATTATA
37007246 A-TT-TTATA
1 ATTTATTATA
37007254 ATTTAATTAAATA
1 ATTT-ATT--ATA
*
37007267 ATATTTTTATA
1 AT-TTATTATA
*
37007278 ATTTATTAGA
1 ATTTATTATA
* *
37007288 ACTTATTA-G
1 ATTTATTATA
37007297 ATTTATTATA
1 ATTTATTATA
37007307 A--TATT-T-
1 ATTTATTATA
37007313 ATTT-TTATGA
1 ATTTATTAT-A
*
37007323 CTTT-TTATA
1 ATTTATTATA
37007332 ATTTATTATA
1 ATTTATTATA
37007342 A-TTA--ATA
1 ATTTATTATA
37007349 AGTTT-TTATA
1 A-TTTATTATA
*
37007359 ATTTTTTAATA
1 ATTTATT-ATA
37007370 ATTT-TTATA
1 ATTTATTATA
37007379 AGTTTAT
1 A-TTTAT
37007386 ATCAATTTTA
Statistics
Matches: 124, Mismatches: 11, Indels: 47
0.68 0.06 0.26
Matches are distributed among these distances:
6 1 0.01
7 11 0.09
8 9 0.07
9 30 0.24
10 46 0.37
11 18 0.15
13 7 0.06
14 2 0.02
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.60
Consensus pattern (10 bp):
ATTTATTATA
Found at i:37007354 original size:27 final size:26
Alignment explanation
Indices: 37007247--37007372 Score: 91
Period size: 27 Copynumber: 4.8 Consensus size: 26
37007237 ATTTGTTATA
37007247 TTTTATAATTTAATTA-AA-TAATA-T
1 TTTTATAATTT-ATTATAATTAATAGT
* *
37007271 TTTTATAATTTATTAGAACTTATTAGAT
1 TTTTATAATTTATTATAA-TTAATAG-T
* * * *
37007299 TTATTATAATAT-TTAT-TTTTATGACT
1 TT-TTATAATTTATTATAATTAAT-AGT
37007325 TTTTATAATTTATTATAATTAATAAGT
1 TTTTATAATTTATTATAATTAAT-AGT
*
37007352 TTTTATAATTTTTTAATAATT
1 TTTTATAATTTATT-ATAATT
37007373 TTTATAAGTT
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
23 4 0.05
24 13 0.16
25 8 0.10
26 14 0.18
27 20 0.25
28 12 0.15
29 8 0.10
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (26 bp):
TTTTATAATTTATTATAATTAATAGT
Found at i:37007368 original size:8 final size:9
Alignment explanation
Indices: 37007313--37007436 Score: 68
Period size: 10 Copynumber: 13.8 Consensus size: 9
37007303 TATAATATTT
37007313 ATTTTTATGA
1 ATTTTTAT-A
*
37007323 CTTTTTATA
1 ATTTTTATA
37007332 ATTTATTATA
1 ATTT-TTATA
*
37007342 A--TTAATA
1 ATTTTTATA
37007349 AGTTTTTATA
1 A-TTTTTATA
37007359 ATTTTTTAATA
1 A-TTTTT-ATA
37007370 ATTTTTATA
1 ATTTTTATA
*
37007379 AGTTTATATCA
1 A-TTTTTAT-A
37007390 A--TTT-TA
1 ATTTTTATA
37007396 ATTTTTAATA
1 ATTTTT-ATA
37007406 ATTTTGTA-A
1 ATTTT-TATA
37007415 ATTTTT-T-
1 ATTTTTATA
*
37007422 -TTTTTTTA
1 ATTTTTATA
37007430 ATTTTTA
1 ATTTTTA
37007437 ATGATTTTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 33
0.69 0.06 0.25
Matches are distributed among these distances:
6 7 0.08
7 7 0.08
8 7 0.08
9 19 0.21
10 43 0.48
11 7 0.08
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:37007370 original size:11 final size:11
Alignment explanation
Indices: 37007343--37007375 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
37007333 TTTATTATAA
*
37007343 TTAATAAGTTT
1 TTAATAATTTT
37007354 TT-ATAATTTT
1 TTAATAATTTT
37007364 TTAATAATTTT
1 TTAATAATTTT
37007375 T
1 T
37007376 ATAAGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TTAATAATTTT
Found at i:37007422 original size:47 final size:47
Alignment explanation
Indices: 37007324--37007416 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
37007314 TTTTTATGAC
*
37007324 TTTTTATAATTTATTATAATTAATAAGTTTTTATAATTTTTTAATAA
1 TTTTTATAATTTATTATAATTAATAAGTTTTTATAATTTTTAAATAA
*
37007371 TTTTTATAAGTTTA-TATCAATT-TTAA-TTTTTAATAATTTTGTAAAT
1 TTTTTATAA-TTTATTAT-AATTAATAAGTTTTT-ATAATTTT-TAAAT
37007417 TTTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
46 5 0.12
47 23 0.57
48 12 0.30
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (47 bp):
TTTTTATAATTTATTATAATTAATAAGTTTTTATAATTTTTAAATAA
Found at i:37007514 original size:11 final size:10
Alignment explanation
Indices: 37007498--37007536 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
37007488 TTTTACTTGT
37007498 ATAATACAAAA
1 ATAATA-AAAA
37007509 ATAATAAAAA
1 ATAATAAAAA
*
37007519 ATTATAAAAA
1 ATAATAAAAA
37007529 TATAATAA
1 -ATAATAA
37007537 TTTTTATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 13 0.52
11 12 0.48
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
ATAATAAAAA
Found at i:37007895 original size:12 final size:12
Alignment explanation
Indices: 37007878--37007902 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37007868 TCATTCTCAT
37007878 TATTTACGAAAA
1 TATTTACGAAAA
37007890 TATTTACGAAAA
1 TATTTACGAAAA
37007902 T
1 T
37007903 GATATGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TATTTACGAAAA
Found at i:37015912 original size:13 final size:13
Alignment explanation
Indices: 37015894--37015919 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37015884 TGCTGCTACG
37015894 TTGAATTTCAGCA
1 TTGAATTTCAGCA
37015907 TTGAATTTCAGCA
1 TTGAATTTCAGCA
37015920 ATTCATGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGAATTTCAGCA
Found at i:37022247 original size:14 final size:14
Alignment explanation
Indices: 37022228--37022257 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
37022218 TTGGTAATTG
37022228 ATCCAGAGTCCATT
1 ATCCAGAGTCCATT
37022242 ATCCAGAGTCCATT
1 ATCCAGAGTCCATT
37022256 AT
1 AT
37022258 ACCCTTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (14 bp):
ATCCAGAGTCCATT
Found at i:37026603 original size:22 final size:22
Alignment explanation
Indices: 37026575--37026634 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
37026565 TTTATAAGCT
37026575 GCATGTCTAGAGACATTAGCCA
1 GCATGTCTAGAGACATTAGCCA
* *
37026597 GCATGTCTAGAGACATTTGGCA
1 GCATGTCTAGAGACATTAGCCA
* *
37026619 ACATGTCTCGAGACAT
1 GCATGTCTAGAGACAT
37026635 AACCTACCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (22 bp):
GCATGTCTAGAGACATTAGCCA
Found at i:37028035 original size:23 final size:25
Alignment explanation
Indices: 37028018--37028135 Score: 105
Period size: 25 Copynumber: 4.8 Consensus size: 25
37028008 TATTAACTAT
** *
37028018 TAAGCATAAATCACATT-A-ATTTT
1 TAAGCATAAATCACATTAACACATA
* *
37028041 TAAGCGTAAATTACATTAACACATA
1 TAAGCATAAATCACATTAACACATA
* *
37028066 TAAGCATATATTACATTAACACATA
1 TAAGCATAAATCACATTAACACATA
* *
37028091 TAAGCATATACCACATTAACACATA
1 TAAGCATAAATCACATTAACACATA
** * *
37028116 TGGGTATATATCACATTAAC
1 TAAGCATAAATCACATTAAC
37028136 GCACAATTGA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 15 0.19
24 1 0.01
25 64 0.80
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (25 bp):
TAAGCATAAATCACATTAACACATA
Found at i:37028078 original size:25 final size:25
Alignment explanation
Indices: 37028053--37028135 Score: 121
Period size: 25 Copynumber: 3.3 Consensus size: 25
37028043 AGCGTAAATT
*
37028053 ACATTAACACATATAAGCATATATT
1 ACATTAACACATATAAGCATATATC
*
37028078 ACATTAACACATATAAGCATATACC
1 ACATTAACACATATAAGCATATATC
** *
37028103 ACATTAACACATATGGGTATATATC
1 ACATTAACACATATAAGCATATATC
37028128 ACATTAAC
1 ACATTAAC
37028136 GCACAATTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (25 bp):
ACATTAACACATATAAGCATATATC
Found at i:37031318 original size:29 final size:29
Alignment explanation
Indices: 37031276--37031348 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
37031266 TACAAAACTC
*
37031276 AACTCAACTCGTCAAAATTATTTCTTT-AG
1 AACTCATCTCGTCAAAATTATTT-TTTCAG
*
37031305 AACTCATCTTGTCAAAATTATTTTTTCAG
1 AACTCATCTCGTCAAAATTATTTTTTCAG
37031334 AA-TCCATCTCGTCAA
1 AACT-CATCTCGTCAA
37031349 TTTTTTTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 4 0.10
29 35 0.90
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (29 bp):
AACTCATCTCGTCAAAATTATTTTTTCAG
Found at i:37034771 original size:23 final size:23
Alignment explanation
Indices: 37034745--37034789 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
37034735 AACTAATAAA
*
37034745 ATATTAAAAATATATTTTAATTG
1 ATATTAAAAATATATTCTAATTG
* *
37034768 ATATTATATATATATTCTAATT
1 ATATTAAAAATATATTCTAATT
37034790 AAATTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTAAAAATATATTCTAATTG
Found at i:37039106 original size:56 final size:55
Alignment explanation
Indices: 37039028--37039140 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 55
37039018 CTTAGTCAAT
* *
37039028 AATAGTTAAAGGAGGATAATAAAATTATCCAAAATACCTATTTGGGTTTTTTATAG
1 AATAGTTAAAAGAGGATAATAAAATGATCCAAAATACCTATTTGGGTTTTTT-TAG
* *
37039084 AATAGTTAAAAGATGATTATAAAATGATCCAAAATACCTATTTGGGTTTTTTTAG
1 AATAGTTAAAAGAGGATAATAAAATGATCCAAAATACCTATTTGGGTTTTTTTAG
37039139 AA
1 AA
37039141 GAATCATGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 5 0.09
56 48 0.91
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (55 bp):
AATAGTTAAAAGAGGATAATAAAATGATCCAAAATACCTATTTGGGTTTTTTTAG
Found at i:37040038 original size:41 final size:41
Alignment explanation
Indices: 37039992--37040069 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
37039982 TTTTTGGATT
*
37039992 CAATTTGATACTTGAACTTGACA-TTTTTCCTTAATTTAACC
1 CAATTTGATACTTGAACTTAACATTTTTTCC-TAATTTAACC
*
37040033 CAATTTGGTACTTGAACTTAACATTTTTTCCTAATTT
1 CAATTTGATACTTGAACTTAACATTTTTTCCTAATTT
37040070 GGTACTTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
41 27 0.79
42 7 0.21
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (41 bp):
CAATTTGATACTTGAACTTAACATTTTTTCCTAATTTAACC
Found at i:37040340 original size:30 final size:30
Alignment explanation
Indices: 37040306--37040442 Score: 122
Period size: 30 Copynumber: 4.6 Consensus size: 30
37040296 GGACCCCAAA
* *
37040306 AAGTTTAAGTACCAACTTAAAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAAAAAAAGTGTC
* * *
37040336 AAGTTTAGGTAGCAAATTAGGAAAAATTGTC
1 AAGTTTAGGTACCAAATTA-AAAAAAGTGTC
* *
37040367 AAGTTT-GAGTATCAAATTGAACCAAAAA----A
1 AAGTTTAG-GTACCAAATT-AA--AAAAAGTGTC
37040396 AAGTTTAGGTACCAAATTAAAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAAAAAAAGTGTC
*
37040426 AAGTTCAGGTACCAAAT
1 AAGTTTAGGTACCAAAT
37040443 GTTATATTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
26 5 0.06
28 2 0.02
29 15 0.17
30 34 0.40
31 24 0.28
32 1 0.01
33 5 0.06
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (30 bp):
AAGTTTAGGTACCAAATTAAAAAAAGTGTC
Found at i:37040424 original size:90 final size:88
Alignment explanation
Indices: 37040252--37040442 Score: 249
Period size: 90 Copynumber: 2.1 Consensus size: 88
37040242 ATTAAAAATA
* * * **
37040252 TTAGGTACCAAATTAGGAAAAGAGTCAAGTTCGGGTACCGAATTGGACCCCAAAAAGTTTAAGTA
1 TTAGGTACCAAATTAGGAAAAGAGTCAAGTTCGAGTACCAAATTGAACCAAAAAAAGTTTAAGTA
*
37040317 CCAACTTAAAAAAAGTGTCAAGT
66 CCAAATTAAAAAAAGTGTCAAGT
* * * *
37040340 TTAGGTAGCAAATTAGGAAAA-ATTGTCAAGTTTGAGTATCAAATTGAACCAAAAAAAAGTTTAG
1 TTAGGTACCAAATTAGGAAAAGA--GTCAAGTTCGAGTACCAAATTGAACC-AAAAAAAGTTTAA
37040404 GTACCAAATTAAAAAAAGTGTCAAGT
63 GTACCAAATTAAAAAAAGTGTCAAGT
*
37040430 TCAGGTACCAAAT
1 TTAGGTACCAAAT
37040443 GTTATATTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
87 1 0.01
88 20 0.23
89 21 0.24
90 46 0.52
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (88 bp):
TTAGGTACCAAATTAGGAAAAGAGTCAAGTTCGAGTACCAAATTGAACCAAAAAAAGTTTAAGTA
CCAAATTAAAAAAAGTGTCAAGT
Found at i:37040719 original size:31 final size:30
Alignment explanation
Indices: 37040659--37040738 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
37040649 GTACTTTTTA
*
37040659 ATAGTTGAGGTA--ACTTGTGTAATGAAAT
1 ATAGTTTAGGTACCACTTGTGTAATGAAAT
37040687 ATAGTTTAGGTACCACTTGGTGTAAT-AGAAT
1 ATAGTTTAGGTACCACTT-GTGTAATGA-AAT
*
37040718 ATAGTTT-GAGTACCATTTGTG
1 ATAGTTTAG-GTACCACTTGTG
37040739 ACAAGAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
28 11 0.24
30 9 0.20
31 25 0.56
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (30 bp):
ATAGTTTAGGTACCACTTGTGTAATGAAAT
Found at i:37045280 original size:21 final size:22
Alignment explanation
Indices: 37045249--37045293 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
37045239 TTTTCTCTCA
*
37045249 TTTTCTCTCTTGC-CAACACCAT
1 TTTTCTCTCTT-CAAAACACCAT
37045271 TTTTCT-TCTTCAAAACACCAT
1 TTTTCTCTCTTCAAAACACCAT
37045292 TT
1 TT
37045294 ATAAAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 14 0.67
22 6 0.29
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTTCTCTCTTCAAAACACCAT
Found at i:37045346 original size:24 final size:26
Alignment explanation
Indices: 37045319--37045366 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
37045309 TTAAATAAAT
*
37045319 TTTGTTCTTT-TTTTTTCC-ATCTCC
1 TTTGTTCTTTCTTTCTTCCTATCTCC
37045343 TTTGTTCTTTCTTTCTTCCTATCT
1 TTTGTTCTTTCTTTCTTCCTATCT
37045367 TCCCCTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 7 0.33
26 4 0.19
ACGTcount: A:0.04, C:0.25, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTGTTCTTTCTTTCTTCCTATCTCC
Found at i:37046679 original size:27 final size:27
Alignment explanation
Indices: 37046649--37046715 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
37046639 CTTAACATGG
37046649 AAATTTCATGATTACAGGAAACAATCT
1 AAATTTCATGATTACAGGAAACAATCT
37046676 AAATTTCATGATTACAGGAAACAATCT
1 AAATTTCATGATTACAGGAAACAATCT
37046703 AAATTTCATGATT
1 AAATTTCATGATT
37046716 TAATATGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTTCATGATTACAGGAAACAATCT
Found at i:37047568 original size:24 final size:24
Alignment explanation
Indices: 37047540--37047601 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
37047530 TGCATAGTAG
*
37047540 GTATCGGTAGATCTGTTCATAGAA
1 GTATCAGTAGATCTGTTCATAGAA
37047564 GTATCAGTAGATCTGTTCATAGAA
1 GTATCAGTAGATCTGTTCATAGAA
*
37047588 GTATAAGTAG-TCTG
1 GTATCAGTAGATCTG
37047602 GGTGTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 4 0.11
24 32 0.89
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (24 bp):
GTATCAGTAGATCTGTTCATAGAA
Found at i:37050427 original size:205 final size:195
Alignment explanation
Indices: 37050062--37050437 Score: 475
Period size: 205 Copynumber: 1.9 Consensus size: 195
37050052 CTGTACTATA
* *
37050062 AACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAGTATGCAATAAGCATAGTCCCAGCC
1 AACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCAATAAGCATAATCCCAGCC
* *
37050127 ATCATAAGGCCAGTAATCTATTTAGGATCCATATCTCTTTCCCGAGTCACGATGCTGCTCACATA
66 ATCATAAGGCCAGTAATCCATTTAGGATCCATATCTCTTTCCCGACTCACGATGCTGCTCACATA
* * * * *
37050192 AGTTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCCATCGATACGGTATCTGTCCATAT
131 AGCTATCGAGGACTCGCAACATAAGCGGTACCACAACCATCCATCGATACGGTATCTGTCCATAT
* * * *
37050257 AACTGTTCCCTAACGATGCTGTTCACACGAGCTGTCGAGAATATGCACTTATGCATAAATCTCAG
1 AACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCA-ATAAGCAT-AATCCCAG
* * *
37050322 CCATCGTAGGGCCTA-TATTCCATTTAGGATCCATATTTCTTTTCTCATTTCCCGACTCACGATG
64 CCATCATAAGGCC-AGTAATCCATTTAGGATCCATA-------TCTC-TTTCCCGACTCACGATG
* * *
37050386 CTGCTCGCATGAGCTATCGAGGACTCGTAACATAAGCGGTACCACAACCATC
120 CTGCTCACATAAGCTATCGAGGACTCGCAACATAAGCGGTACCACAACCATC
37050438 ACGTCAGTTT
Statistics
Matches: 151, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
195 45 0.30
196 6 0.04
197 35 0.23
198 1 0.01
204 4 0.03
205 60 0.40
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (195 bp):
AACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCAATAAGCATAATCCCAGCC
ATCATAAGGCCAGTAATCCATTTAGGATCCATATCTCTTTCCCGACTCACGATGCTGCTCACATA
AGCTATCGAGGACTCGCAACATAAGCGGTACCACAACCATCCATCGATACGGTATCTGTCCATAT
Found at i:37060235 original size:17 final size:16
Alignment explanation
Indices: 37060213--37060302 Score: 73
Period size: 17 Copynumber: 5.6 Consensus size: 16
37060203 AACTTTTGAT
37060213 TTTAAATTTATATTAAA
1 TTTAAATTTAT-TTAAA
*
37060230 TTTAAATTGATTTTAAA
1 TTTAAATTTA-TTTAAA
37060247 TTT--A-TT-TTTAAA
1 TTTAAATTTATTTAAA
37060259 TTTAAATTTAGTTTAAA
1 TTTAAATTTA-TTTAAA
*
37060276 TTTGAAATGGT-TTTAAA
1 TTT-AAAT-TTATTTAAA
*
37060293 TTTAATTTTA
1 TTTAAATTTA
37060303 AATTCAAAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
12 9 0.15
14 2 0.03
15 4 0.07
16 3 0.05
17 35 0.59
18 5 0.08
19 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:37060263 original size:46 final size:46
Alignment explanation
Indices: 37060213--37060306 Score: 138
Period size: 46 Copynumber: 2.0 Consensus size: 46
37060203 AACTTTTGAT
*
37060213 TTTAAATTTA-TATTAAATTT-AAATTGATTTTAAATTTATTTTTAAA
1 TTTAAATTTAGT-TTAAATTTGAAA-TGATTTTAAATTTAATTTTAAA
*
37060259 TTTAAATTTAGTTTAAATTTGAAATGGTTTTAAATTTAATTTTAAA
1 TTTAAATTTAGTTTAAATTTGAAATGATTTTAAATTTAATTTTAAA
37060305 TT
1 TT
37060307 CAAAAGTCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
46 40 0.91
47 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (46 bp):
TTTAAATTTAGTTTAAATTTGAAATGATTTTAAATTTAATTTTAAA
Found at i:37061017 original size:3 final size:3
Alignment explanation
Indices: 37060987--37061047 Score: 59
Period size: 3 Copynumber: 19.3 Consensus size: 3
37060977 TTCAAAAATG
* * **
37060987 TAA TAAA TATA TAA TAAA TAA CAT TAA TAA TAA TAA TAA TAA TAA TTT
1 TAA T-AA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37061035 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
37061048 TAGTAAAGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 38 0.81
4 9 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:37062236 original size:30 final size:30
Alignment explanation
Indices: 37062167--37062223 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
37062157 AAAATCATAC
* *
37062167 TTTGACCCCTAAACTTTTTAGAAATTACAT
1 TTTGACCCCTAAACTTTTCAAAAATTACAT
37062197 TTTGACCCCTAAACTTTTCAAAAATTA
1 TTTGACCCCTAAACTTTTCAAAAATTA
37062224 TGTTTTTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (30 bp):
TTTGACCCCTAAACTTTTCAAAAATTACAT
Found at i:37062332 original size:28 final size:28
Alignment explanation
Indices: 37062246--37062340 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 28
37062236 TCAGTGTTCA
* *
37062246 AAAATTCCCGTTTTTGCCCTCGAGCATCCC
1 AAAATTACCG-TTTTGCCCTCGAGTAT-CC
* * * *
37062276 AAAATTACCATTTTGCCCTCAAATGTCC
1 AAAATTACCGTTTTGCCCTCGAGTATCC
* *
37062304 AAAATTACCGTTTTGCCCCCGGGTATCC
1 AAAATTACCGTTTTGCCCTCGAGTATCC
37062332 AAAAATTAC
1 -AAAATTAC
37062341 ATTTTTGACT
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
28 24 0.46
29 20 0.38
30 8 0.15
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (28 bp):
AAAATTACCGTTTTGCCCTCGAGTATCC
Found at i:37066867 original size:24 final size:24
Alignment explanation
Indices: 37066840--37066886 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
37066830 TAAAAATATT
* * *
37066840 TTAATATTCAAATTTAAATTTTTC
1 TTAATAATCAAAATGAAATTTTTC
37066864 TTAATAATCAAAATGAAATTTTT
1 TTAATAATCAAAATGAAATTTTT
37066887 GATCAAGCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (24 bp):
TTAATAATCAAAATGAAATTTTTC
Found at i:37071629 original size:11 final size:10
Alignment explanation
Indices: 37071608--37071640 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
37071598 TTCTTTTAAC
37071608 TTTCCTTTTT
1 TTTCCTTTTT
37071618 TTAT-CTTTTT
1 TT-TCCTTTTT
37071628 TTTCCTTTTT
1 TTTCCTTTTT
37071638 TTT
1 TTT
37071641 TGCTTCTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.05
10 19 0.90
11 1 0.05
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCCTTTTT
Found at i:37071641 original size:25 final size:25
Alignment explanation
Indices: 37071586--37071641 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
37071576 AGCAATTTAA
*
37071586 TTTTTTTTTATGTTCTTTTAACTTT
1 TTTTTTTTTATCTTCTTTTAACTTT
** * **
37071611 CCTTTTTTTATCTTTTTTTTCCTTT
1 TTTTTTTTTATCTTCTTTTAACTTT
37071636 TTTTTT
1 TTTTTT
37071642 GCTTCTCCCT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTTTTTTTATCTTCTTTTAACTTT
Found at i:37072455 original size:24 final size:25
Alignment explanation
Indices: 37072390--37072455 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
37072380 AAACCAGCCA
37072390 ATATTATTT-TTTAAAATTTATATT
1 ATATTATTTATTTAAAATTTATATT
37072414 ATATTAGTTTAATATTTAATAATTT-TA-T
1 ATATTA--TT--TATTTAA-AATTTATATT
37072442 ATATTATTTATTTA
1 ATATTATTTATTTA
37072456 TTGAAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
24 12 0.33
26 4 0.11
28 8 0.22
29 7 0.19
30 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
ATATTATTTATTTAAAATTTATATT
Found at i:37077726 original size:11 final size:11
Alignment explanation
Indices: 37077649--37077728 Score: 52
Period size: 11 Copynumber: 7.2 Consensus size: 11
37077639 TTTTCCTCTG
*
37077649 TTTTGTTGTTA
1 TTTTGTTATTA
* *
37077660 TTTTTCTTGTTA
1 -TTTTGTTATTA
* *
37077672 TTTTCTCATTA
1 TTTTGTTATTA
**
37077683 TTTTGTTACCA
1 TTTTGTTATTA
*
37077694 TTTTATTATTA
1 TTTTGTTATTA
** *
37077705 TAGTGTAATTA
1 TTTTGTTATTA
37077716 TTTTGTTATTA
1 TTTTGTTATTA
37077727 TT
1 TT
37077729 GTTTAGATAT
Statistics
Matches: 51, Mismatches: 17, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
11 41 0.80
12 10 0.20
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:37078702 original size:23 final size:23
Alignment explanation
Indices: 37078672--37078721 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
37078662 CTGAGTGTTA
37078672 GTTTATTAATGAGGTTGAAAAGT
1 GTTTATTAATGAGGTTGAAAAGT
37078695 GTTTATTAATGAGGTTGAAAAGT
1 GTTTATTAATGAGGTTGAAAAGT
37078718 GTTT
1 GTTT
37078722 TTAGAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (23 bp):
GTTTATTAATGAGGTTGAAAAGT
Found at i:37084628 original size:11 final size:11
Alignment explanation
Indices: 37084609--37084641 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
37084599 AAGTGCTGAT
37084609 CGACCGTTGAC
1 CGACCGTTGAC
37084620 C-AGCCGTTGAC
1 CGA-CCGTTGAC
37084631 CGACCGTTGAC
1 CGACCGTTGAC
37084642 TATTAATCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.18, C:0.36, G:0.27, T:0.18
Consensus pattern (11 bp):
CGACCGTTGAC
Found at i:37084661 original size:7 final size:7
Alignment explanation
Indices: 37084649--37084690 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
37084639 GACTATTAAT
37084649 CGTTGAC
1 CGTTGAC
37084656 CGTTGAC
1 CGTTGAC
*
37084663 AGTTGAC
1 CGTTGAC
*
37084670 CGTTTAC
1 CGTTGAC
*
37084677 CATTGAC
1 CGTTGAC
37084684 CGTTGAC
1 CGTTGAC
37084691 TTTTTTGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (7 bp):
CGTTGAC
Found at i:37084673 original size:21 final size:21
Alignment explanation
Indices: 37084632--37084690 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
37084622 GCCGTTGACC
* *
37084632 GACCGTTGACTA-TTAATCGTT
1 GACCGTTGAC-AGTTGACCGTT
37084653 GACCGTTGACAGTTGACCGTT
1 GACCGTTGACAGTTGACCGTT
* * *
37084674 TACCATTGACCGTTGAC
1 GACCGTTGACAGTTGAC
37084691 TTTTTTGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (21 bp):
GACCGTTGACAGTTGACCGTT
Found at i:37091795 original size:15 final size:15
Alignment explanation
Indices: 37091756--37091789 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
37091746 ACCATTATGC
37091756 CCAAACCCAATTGAA
1 CCAAACCCAATTGAA
37091771 CCAAACCCAATTGAA
1 CCAAACCCAATTGAA
37091786 CCAA
1 CCAA
37091790 GTCCAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.35, G:0.06, T:0.12
Consensus pattern (15 bp):
CCAAACCCAATTGAA
Found at i:37091839 original size:22 final size:21
Alignment explanation
Indices: 37091814--37091856 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
37091804 CAAGTCAAGC
*
37091814 CGTTGATCGACCATTGATCAGT
1 CGTTGACCGACCATTGA-CAGT
*
37091836 CGTTGACCGACCGTTGACAGT
1 CGTTGACCGACCATTGACAGT
37091857 TGATCGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
CGTTGACCGACCATTGACAGT
Found at i:37096141 original size:31 final size:31
Alignment explanation
Indices: 37096103--37096164 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
37096093 AGGTATCTGT
*
37096103 CATCATGCATGGAGATCTACCTAACATATCA
1 CATCATGCAAGGAGATCTACCTAACATATCA
37096134 CATCATGCAAGGAGATCTACCTAACATATCA
1 CATCATGCAAGGAGATCTACCTAACATATCA
37096165 TATCTATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (31 bp):
CATCATGCAAGGAGATCTACCTAACATATCA
Found at i:37097266 original size:12 final size:12
Alignment explanation
Indices: 37097249--37097284 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
37097239 ATTCCAAAAT
37097249 TAATAATAATAG
1 TAATAATAATAG
*
37097261 TAATAATAATAT
1 TAATAATAATAG
37097273 TAATAAATAATA
1 TAAT-AATAATA
37097285 AATATCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:37098364 original size:7 final size:7
Alignment explanation
Indices: 37098352--37098460 Score: 68
Period size: 7 Copynumber: 16.4 Consensus size: 7
37098342 TTCGAAAAAA
37098352 GTCAACG
1 GTCAACG
37098359 GTCAACG
1 GTCAACG
37098366 GTCAACG
1 GTCAACG
*
37098373 GTCAA-A
1 GTCAACG
*
37098379 GTCAACA
1 GTCAACG
37098386 GTCAAC-
1 GTCAACG
* *
37098392 TTCAACT
1 GTCAACG
* *
37098399 ATCAACT
1 GTCAACG
* *
37098406 ATTAACG
1 GTCAACG
*
37098413 GTCAACA
1 GTCAACG
* *
37098420 GTTAACT
1 GTCAACG
37098427 GTCAACG
1 GTCAACG
*
37098434 GTCAA-A
1 GTCAACG
37098440 GTCAAC-
1 GTCAACG
37098446 GTC--CG
1 GTCAACG
37098451 GTCAACG
1 GTCAACG
37098458 GTC
1 GTC
37098461 TGTTAATGGA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
4 1 0.01
5 3 0.04
6 18 0.22
7 61 0.73
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (7 bp):
GTCAACG
Found at i:37098535 original size:20 final size:20
Alignment explanation
Indices: 37098512--37098562 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
37098502 CTTGATTCAA
37098512 TTGGTTTGGTTCAAATGGGT
1 TTGGTTTGGTTCAAATGGGT
37098532 TTGGTTTGGTTCAAATGGGT
1 TTGGTTTGGTTCAAATGGGT
*
37098552 TTGGTTAGGTT
1 TTGGTTTGGTT
37098563 TTTAAAGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.14, C:0.04, G:0.35, T:0.47
Consensus pattern (20 bp):
TTGGTTTGGTTCAAATGGGT
Found at i:37101888 original size:14 final size:14
Alignment explanation
Indices: 37101869--37101900 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
37101859 TCCAAGTTAG
37101869 TTTTTCTGTTAAAT
1 TTTTTCTGTTAAAT
*
37101883 TTTTTCTGTTAACT
1 TTTTTCTGTTAAAT
37101897 TTTT
1 TTTT
37101901 AAAAAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (14 bp):
TTTTTCTGTTAAAT
Found at i:37107986 original size:53 final size:53
Alignment explanation
Indices: 37107906--37108014 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
37107896 TAAAAAGATA
37107906 GTTCTATTTCCACTGTTTGTGCTTGTTTTTACTTCTTTGCGTGACCCTTTCCT
1 GTTCTATTTCCACTGTTTGTGCTTGTTTTTACTTCTTTGCGTGACCCTTTCCT
37107959 GTTCTATTTCCACTGTTTGTGCTTGTTTTTACTTCTTTGCGTGACCCTTTCCT
1 GTTCTATTTCCACTGTTTGTGCTTGTTTTTACTTCTTTGCGTGACCCTTTCCT
37108012 GTT
1 GTT
37108015 ATAACATACT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.07, C:0.24, G:0.16, T:0.53
Consensus pattern (53 bp):
GTTCTATTTCCACTGTTTGTGCTTGTTTTTACTTCTTTGCGTGACCCTTTCCT
Found at i:37111719 original size:22 final size:22
Alignment explanation
Indices: 37111694--37111735 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
37111684 GTAGTGCGTC
37111694 CATTACATTGTTCTCTAACTTG
1 CATTACATTGTTCTCTAACTTG
*
37111716 CATTGCATTGTTCTCTAACT
1 CATTACATTGTTCTCTAACT
37111736 GGCAAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (22 bp):
CATTACATTGTTCTCTAACTTG
Found at i:37111749 original size:22 final size:22
Alignment explanation
Indices: 37111698--37111749 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
37111688 TGCGTCCATT
* *
37111698 ACATTGTTCTCTAACTTGCATT
1 ACATTGTTCTCTAACTGGCATA
*
37111720 GCATTGTTCTCTAACTGGCA-A
1 ACATTGTTCTCTAACTGGCATA
37111741 ACATGTGTT
1 ACAT-TGTT
37111750 TGACTTGACG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (22 bp):
ACATTGTTCTCTAACTGGCATA
Found at i:37112490 original size:40 final size:39
Alignment explanation
Indices: 37112426--37112551 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 39
37112416 CTTCTTTCTT
* * *
37112426 TGTCATTTCATGAAAGTGGTTTTTTTCACATACCTTCCTC
1 TGTCATTTC-TGAATGTGGTTTTTTTCACGTAGCTTCCTC
* * *
37112466 TGTCATTTCTTGAATGTGGCTTTTTTCGCGTAGTTTCCTCC
1 TGTCATTTC-TGAATGTGGTTTTTTTCACGTAGCTTCCT-C
* *
37112507 TTTGTCATTTCTAAATGTGGTTTTTTTCACGTAGCTTCCTT
1 --TGTCATTTCTGAATGTGGTTTTTTTCACGTAGCTTCCTC
37112548 TGTC
1 TGTC
37112552 TTTGTGTTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
39 4 0.06
40 32 0.45
41 1 0.01
42 25 0.35
43 9 0.13
ACGTcount: A:0.14, C:0.21, G:0.16, T:0.49
Consensus pattern (39 bp):
TGTCATTTCTGAATGTGGTTTTTTTCACGTAGCTTCCTC
Found at i:37112533 original size:43 final size:43
Alignment explanation
Indices: 37112461--37112546 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 43
37112451 TCACATACCT
* * *
37112461 TCCTCTGTCATTTCTTGAATGTGGCTTTTTTCGCGTAGTTTCC
1 TCCTCTGTCATTTCTTAAATGTGGCTTTTTTCACGTAGCTTCC
* *
37112504 TCCTTTGTCATTTC-TAAATGTGGTTTTTTTCACGTAGCTTCC
1 TCCTCTGTCATTTCTTAAATGTGGCTTTTTTCACGTAGCTTCC
37112546 T
1 T
37112547 TTGTCTTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 25 0.66
43 13 0.34
ACGTcount: A:0.12, C:0.22, G:0.16, T:0.50
Consensus pattern (43 bp):
TCCTCTGTCATTTCTTAAATGTGGCTTTTTTCACGTAGCTTCC
Found at i:37125174 original size:24 final size:23
Alignment explanation
Indices: 37125147--37125344 Score: 198
Period size: 24 Copynumber: 8.4 Consensus size: 23
37125137 AGGACTTCTT
*
37125147 TACGTTCACGCTCGTCAGCATGA
1 TACGTTTACGCTCGTCAGCATGA
37125170 GTACGTTTACGCTCGTCAGCATGAA
1 -TACGTTTACGCTCGTCAGCATG-A
* * **
37125195 TACGTTTACGCTTGTAAAAATGAA
1 TACGTTTACGCTCGTCAGCATG-A
* * * *
37125219 TACGCTTAGGCTCGTTAACATGA
1 TACGTTTACGCTCGTCAGCATGA
* * * *
37125242 TTAGGTTTACACTCGTCAACCTGA
1 -TACGTTTACGCTCGTCAGCATGA
*
37125266 TACGTTTACACTCGTCAGCATGA
1 TACGTTTACGCTCGTCAGCATGA
* *
37125289 TACTTTTACGCTTGTCAGCATGA
1 TACGTTTACGCTCGTCAGCATGA
37125312 TTACGTTTACGCTCGTCAGCATGA
1 -TACGTTTACGCTCGTCAGCATGA
*
37125336 TACATTTAC
1 TACGTTTAC
37125345 TTCATTTACT
Statistics
Matches: 146, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
23 49 0.34
24 96 0.66
25 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (23 bp):
TACGTTTACGCTCGTCAGCATGA
Found at i:37127578 original size:18 final size:19
Alignment explanation
Indices: 37127565--37127605 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
37127555 TAGCTCGTTT
37127565 GAGC-TTACTGGCTCGTAA
1 GAGCGTTACTGGCTCGTAA
*
37127583 GAGCGTTACTGGCTCGTGA
1 GAGCGTTACTGGCTCGTAA
37127602 GAGC
1 GAGC
37127606 AATATACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.24
Consensus pattern (19 bp):
GAGCGTTACTGGCTCGTAA
Found at i:37128172 original size:21 final size:21
Alignment explanation
Indices: 37128146--37128194 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
37128136 CTTACTTGTT
37128146 TCGGTAGTTCTCATACATGTA
1 TCGGTAGTTCTCATACATGTA
* *
37128167 TCGGTAATTCTCATATATGTA
1 TCGGTAGTTCTCATACATGTA
37128188 TCGGTAG
1 TCGGTAG
37128195 AAGTACAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (21 bp):
TCGGTAGTTCTCATACATGTA
Found at i:37131147 original size:30 final size:30
Alignment explanation
Indices: 37131112--37131173 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
37131102 TTTTTAAATT
37131112 TATTGGAAACATTTATTTTAATGTTTTTAG
1 TATTGGAAACATTTATTTTAATGTTTTTAG
37131142 TATTGGAAACATTTATTTTAATGTTTTTAG
1 TATTGGAAACATTTATTTTAATGTTTTTAG
37131172 TA
1 TA
37131174 AATTTGATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.53
Consensus pattern (30 bp):
TATTGGAAACATTTATTTTAATGTTTTTAG
Found at i:37136792 original size:29 final size:29
Alignment explanation
Indices: 37136756--37137043 Score: 105
Period size: 29 Copynumber: 10.0 Consensus size: 29
37136746 GTAAATTTAG
37136756 GAAAATTCGAGGTTAAAAATGGAATTTTT
1 GAAAATTCGAGGTTAAAAATGGAATTTTT
* * *
37136785 GAACATTC-AGGGGT--AAATGGTAATTTTG
1 GAAAATTCGA-GGTTAAAAATGG-AATTTTT
* * *
37136813 GAAAAATAGGGGTTAAAAATGGAATTTTT
1 GAAAATTCGAGGTTAAAAATGGAATTTTT
* * * * * *
37136842 GGAAGTTTGGGGGT--AAATGGTAATTTTAGG
1 GAAAATTCGAGGTTAAAAATGG-AATTTT--T
*
37136872 GAAAA-TCGAGGTCAAAAAT-GAATTTTT
1 GAAAATTCGAGGTTAAAAATGGAATTTTT
* * * * * **
37136899 GGAAGTTTGGGGGT-AAAATGGTAATTTGG
1 GAAAATTCGAGGTTAAAAATGG-AATTTTT
* * *
37136928 GAAAAATCAAGGTCAAAATATGGAATTTTT
1 GAAAATTCGAGGTTAAAA-ATGGAATTTTT
* * * *
37136958 GGAAGTTCGAGGGT-AAAATGGTAATTTTG
1 GAAAATTCGAGGTTAAAAATGG-AATTTTT
* * * *
37136987 GAAAGA-TCAAGGTCAAAAATGAAATTTCTA
1 GAAA-ATTCGAGGTTAAAAATGGAATTT-TT
*
37137017 GAAAATTCGACGG-T-AAAATGTAATTTT
1 GAAAATTCGA-GGTTAAAAATGGAATTTT
37137044 CAGAAAGTTT
Statistics
Matches: 181, Mismatches: 57, Indels: 43
0.64 0.20 0.15
Matches are distributed among these distances:
27 20 0.11
28 31 0.17
29 80 0.44
30 40 0.22
31 10 0.06
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.31
Consensus pattern (29 bp):
GAAAATTCGAGGTTAAAAATGGAATTTTT
Found at i:37136827 original size:57 final size:58
Alignment explanation
Indices: 37136741--37137013 Score: 306
Period size: 57 Copynumber: 4.7 Consensus size: 58
37136731 ACTTAAGGGC
* * * * * *
37136741 AAATGGTAAATTTAGGAAAATTCGAGGTTAAAAATGGAATTTTT-GAACATTCAGGGGT-
1 AAATGGT-AATTTTGGAAAAATAGAGGTCAAAAATGGAATTTTTGGAA-GTTCGGGGGTA
* * *
37136799 AAATGGTAATTTTGGAAAAATAGGGGTTAAAAATGGAATTTTTGGAAGTTTGGGGGT-
1 AAATGGTAATTTTGGAAAAATAGAGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTA
* * *
37136856 AAATGGTAATTTTAGGGAAAATCGAGGTCAAAAAT-GAATTTTTGGAAGTTTGGGGGTA
1 AAATGGTAATTTT-GGAAAAATAGAGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTA
* *
37136914 AAATGGTAATTTGGGAAAAATCA-AGGTCAAAATATGGAATTTTTGGAAGTTCGAGGGTA
1 AAATGGTAATTTTGGAAAAAT-AGAGGTCAAAA-ATGGAATTTTTGGAAGTTCGGGGGTA
* *
37136973 AAATGGTAATTTTGGAAAGATCA-AGGTCAAAAATGAAATTT
1 AAATGGTAATTTTGGAAAAAT-AGAGGTCAAAAATGGAATTT
37137014 CTAGAAAATT
Statistics
Matches: 190, Mismatches: 19, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
57 90 0.47
58 49 0.26
59 51 0.27
ACGTcount: A:0.39, C:0.04, G:0.27, T:0.31
Consensus pattern (58 bp):
AAATGGTAATTTTGGAAAAATAGAGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTA
Found at i:37136842 original size:115 final size:116
Alignment explanation
Indices: 37136723--37137009 Score: 295
Period size: 115 Copynumber: 2.5 Consensus size: 116
37136713 AAAATGATAA
*
37136723 TTTTGGACA-CTTAAGGGCAAATGGTAAATTTA-GGAAAATTCGAGGTTAAAAATGGAATTTTT-
1 TTTTGGA-AGCTTAAGGGCAAATGGTAAATTTAGGGAAAA-TCGAGGTCAAAAAT-GAATTTTTG
* * *
37136785 GAACATTCAGGGGT-AAATGGTAATTTTGGAAAAAT-AGGGGTTAAAA-ATGGAAT
63 GAA-ATTCAGGGGTAAAATGGTAATTTGGGAAAAATCA-AGGTCAAAATATGGAAT
* ** * *
37136838 TTTTGGAAGTTTGGGGGTAAATGGTAATTTTAGGGAAAATCGAGGTCAAAAATGAATTTTTGGAA
1 TTTTGGAAGCTTAAGGGCAAATGGTAAATTTAGGGAAAATCGAGGTCAAAAATGAATTTTTGGAA
* **
37136903 GTTTGGGGGTAAAATGGTAATTTGGGAAAAATCAAGGTCAAAATATGGAAT
66 ATTCAGGGGTAAAATGGTAATTTGGGAAAAATCAAGGTCAAAATATGGAAT
* * * *
37136954 TTTTGGAAG-TTCGAGGGTAAAATGGT-AATTT-TGGAAAGATCAAGGTCAAAAATGAA
1 TTTTGGAAGCTT-AAGGG-CAAATGGTAAATTTAGGGAAA-ATCGAGGTCAAAAATGAA
37137010 ATTTCTAGAA
Statistics
Matches: 146, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
114 16 0.11
115 75 0.51
116 48 0.33
117 7 0.05
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (116 bp):
TTTTGGAAGCTTAAGGGCAAATGGTAAATTTAGGGAAAATCGAGGTCAAAAATGAATTTTTGGAA
ATTCAGGGGTAAAATGGTAATTTGGGAAAAATCAAGGTCAAAATATGGAAT
Found at i:37137050 original size:59 final size:59
Alignment explanation
Indices: 37136856--37137043 Score: 188
Period size: 59 Copynumber: 3.2 Consensus size: 59
37136846 GTTTGGGGGT
* * * * * **
37136856 AAATGGTAATTTTAGGGAAA-ATCGAGGTCAAAA-ATG-AATTTTTGGAAGTTTGGGGGTA
1 AAATGGTAATTTT--GGAAAGATCAAGGTCAAAATATGAAATTTTAGAAAATTCGACGGTA
* * * * * * *
37136914 AAATGGTAATTTGGGAAAAATCAAGGTCAAAATATGGAATTTTTGGAAGTTCGAGGGTA
1 AAATGGTAATTTTGGAAAGATCAAGGTCAAAATATGAAATTTTAGAAAATTCGACGGTA
37136973 AAATGGTAATTTTGGAAAGATCAAGGTCAAAA-ATGAAATTTCTAGAAAATTCGACGGTA
1 AAATGGTAATTTTGGAAAGATCAAGGTCAAAATATGAAATTT-TAGAAAATTCGACGGTA
37137032 AAAT-GTAATTTT
1 AAATGGTAATTTT
37137044 CAGAAAGTTT
Statistics
Matches: 115, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
56 5 0.04
57 12 0.10
58 31 0.27
59 67 0.58
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.30
Consensus pattern (59 bp):
AAATGGTAATTTTGGAAAGATCAAGGTCAAAATATGAAATTTTAGAAAATTCGACGGTA
Found at i:37137093 original size:29 final size:29
Alignment explanation
Indices: 37137031--37137104 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
37137021 ATTCGACGGT
* ***
37137031 AAAATGTAATTTTCAGAAAGTTTAGGGTCG
1 AAAATGTAATTTT-TGAAAGTTTAGGGGAA
37137061 AAAATGTAATTTTTGAAAGTTTAGGGGAA
1 AAAATGTAATTTTTGAAAGTTTAGGGGAA
*
37137090 AAAATATAATTTTTG
1 AAAATGTAATTTTTG
37137105 GAGGTTCGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAAGTTTAGGGGAA
Found at i:37137116 original size:29 final size:29
Alignment explanation
Indices: 37137061--37137135 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
37137051 TTTAGGGTCG
* * *
37137061 AAAATGTAATTTTTGAAAGTTTAGGGGAA
1 AAAATATAATTTTTGGAAGTTCAGGGGAA
* * **
37137090 AAAATATAATTTTTGGAGGTTCGGGGGTC
1 AAAATATAATTTTTGGAAGTTCAGGGGAA
*
37137119 AAAATATATTTTTTGGA
1 AAAATATAATTTTTGGA
37137136 TAATTTTAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAATATAATTTTTGGAAGTTCAGGGGAA
Found at i:37138141 original size:3 final size:3
Alignment explanation
Indices: 37138133--37138159 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37138123 TTCATTTTCT
37138133 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
37138160 ATTGTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37138923 original size:16 final size:17
Alignment explanation
Indices: 37138895--37138934 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
37138885 TAAAATAATA
37138895 AATTTTATTTAAAATTT
1 AATTTTATTTAAAATTT
37138912 AATTTT-TTTAAAATTT
1 AATTTTATTTAAAATTT
*
37138928 AAATTTA
1 AATTTTA
37138935 AAATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTTATTTAAAATTT
Found at i:37138942 original size:17 final size:16
Alignment explanation
Indices: 37138922--37138960 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
37138912 AATTTTTTTA
*
37138922 AAATTTAAATTTAAAAT
1 AAATTTAAACTT-AAAT
*
37138939 AAATTTAACCTTAAAT
1 AAATTTAAACTTAAAT
37138955 AAATTT
1 AAATTT
37138961 TAAAATGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTAAACTTAAAT
Found at i:37139742 original size:198 final size:200
Alignment explanation
Indices: 37139298--37139863 Score: 841
Period size: 198 Copynumber: 2.8 Consensus size: 200
37139288 ATCTCGTTAA
* * * * * *
37139298 GAAGATGATCGCATCGCTTGTTTCAATTTGCTTCTCTGTACCTCATCAAGAAGACAAATTTGGTT
1 GAAGATGACCGCCTCGCTTGTTTCAATCTGCTTCTCTGTACCTCATCAGGAAGACGAATTTGGTC
* * *
37139363 CACTTCTCAGTATTTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTTA
66 CACTTCTCAGTATCTCAT-AAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCA
* * * *
37139428 TCAGGAAGCTGGGATTCGAAGATTTGCTCACATCGAGCCTTGAGTTGGTATACTTCTCTGTATCT
130 TCAAGAAGCTGGGATTCGAAGATTTGCTCTCATTGAGCCTTGAGTTGGTATACTTCTCTATATCT
37139493 CATCAG
195 CATCAG
* * * * ** *
37139499 GAAGATAACCGCCCCGTTTGTTTCGATCCACTTCTCTGTACCTCATCAGGAAAACGAATTTGGTC
1 GAAGATGACCGCCTCGCTTGTTTCAATCTGCTTCTCTGTACCTCATCAGGAAGACGAATTTGGTC
* *
37139564 CACTTCTCAGTATCTCATTAGAAGCTAACCA-TTTATTGCTTCGACCTGTTTCTCAGTATCTCAT
66 CACTTCTCAGTATCTCATAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
* *
37139628 CAAGAAGCTGGGATTCAAAGATTTGCTCTCATTGAGCC-TGAGTTGGTATACTTCTCTATATCTT
131 CAAGAAGCTGGGATTCGAAGATTTGCTCTCATTGAGCCTTGAGTTGGTATACTTCTCTATATCTC
37139692 ATCAG
196 ATCAG
*
37139697 GAAGATGACCGCCTCACTTGTTTCAATCTGCTTCTCTGTACCTCATCAGGAAGACGAATTTGGTC
1 GAAGATGACCGCCTCGCTTGTTTCAATCTGCTTCTCTGTACCTCATCAGGAAGACGAATTTGGTC
*
37139762 CACTTCTCAGTATCTCATCAAGAAGTTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCA
66 CACTTCTCAGTATCTCAT-AAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCA
*
37139827 TC-AGAAAGCTGGGGTTCGAAGATTTGCTCTCATTGAG
130 TCAAG-AAGCTGGGATTCGAAGATTTGCTCTCATTGAG
37139864 TTGGTATACT
Statistics
Matches: 325, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
198 104 0.32
199 78 0.24
200 74 0.23
201 69 0.21
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (200 bp):
GAAGATGACCGCCTCGCTTGTTTCAATCTGCTTCTCTGTACCTCATCAGGAAGACGAATTTGGTC
CACTTCTCAGTATCTCATAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
CAAGAAGCTGGGATTCGAAGATTTGCTCTCATTGAGCCTTGAGTTGGTATACTTCTCTATATCTC
ATCAG
Found at i:37151922 original size:29 final size:28
Alignment explanation
Indices: 37151819--37152108 Score: 148
Period size: 30 Copynumber: 9.9 Consensus size: 28
37151809 TGATACTTGG
*
37151819 AGGGTAAAATGGTAA-TTTTGGACACA-TG
1 AGGGTAAAATGGTAATTTTTGGA-A-ATTC
* *
37151847 AGGGCAAAATGGTAATTTTGGGAAAGTTC
1 AGGGTAAAATGGTAATTTTTGGAAA-TTC
* * *
37151876 GGGGTCAAAAATAG-AATTTTTGGATATTC
1 AGGGT--AAAATGGTAATTTTTGGAAATTC
*
37151905 AAGGGTAAAATGGTAATTTTTGGAAAAATC
1 -AGGGTAAAATGGTAATTTTTGG-AAATTC
* * *
37151935 GGGGTAAAAAAATGG-AATTTTTGGAAGTTTG
1 AGGGT---AAAATGGTAATTTTTGGAA-ATTC
*
37151966 AGGGTAAAATGGTAATTTTAAGGAAAATT-
1 AGGGTAAAATGGTAATTTT-TGG-AAATTC
* * * *
37151995 ATGGTCAAAAAAGG-AATTTTTGGAAGTTT
1 AGGGT--AAAATGGTAATTTTTGGAAATTC
* *
37152024 AGGGGTAAAATGGTAA-TTTGGGAAAAATC
1 A-GGGTAAAATGGTAATTTTTGG-AAATTC
* *
37152053 AAGGTCAAAAAAGG-AATTTTTGGAAAATTC
1 AGGGT--AAAATGGTAATTTTTGG-AAATTC
37152083 AGGAGTAAAAAT-GTAATTTTTGGAAA
1 AGG-GT-AAAATGGTAATTTTTGGAAA
37152109 GTTTGGGGGT
Statistics
Matches: 201, Mismatches: 35, Indels: 51
0.70 0.12 0.18
Matches are distributed among these distances:
27 1 0.00
28 46 0.23
29 51 0.25
30 66 0.33
31 30 0.15
32 7 0.03
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.30
Consensus pattern (28 bp):
AGGGTAAAATGGTAATTTTTGGAAATTC
Found at i:37151955 original size:60 final size:59
Alignment explanation
Indices: 37151847--37152108 Score: 266
Period size: 59 Copynumber: 4.4 Consensus size: 59
37151837 TGGACACATG
* ** *
37151847 AGGGCAAAATGGTAATTTTGGGAAAGTTCGGGGTCAAAAATA-GAATTTTTGGATA-TTCA
1 AGGGTAAAATGGTAATTTTGGGAAAAATCAGGGTCAAAAA-AGGAATTTTTGGA-AGTTCA
* * * **
37151906 AGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTAAAAAAATGGAATTTTTGGAAGTTTG
1 AGGGTAAAATGGTAATTTTGGGAAAAATCAGGGTCAAAAAA-GGAATTTTTGGAAGTTCA
* * * *
37151966 AGGGTAAAATGGTAATTTTAAGG-AAAATTATGGTCAAAAAAGGAATTTTTGGAAGTTTA
1 AGGGTAAAATGGTAATTTT-GGGAAAAATCAGGGTCAAAAAAGGAATTTTTGGAAGTTCA
* * *
37152025 GGGGTAAAATGGTAA-TTTGGGAAAAATCAAGGTCAAAAAAGGAATTTTTGGAAAATTC-
1 AGGGTAAAATGGTAATTTTGGGAAAAATCAGGGTCAAAAAAGGAATTTTTGG-AAGTTCA
*
37152083 AGGAGTAAAAAT-GTAATTTTTGGAAA
1 AGG-GT-AAAATGGTAATTTTGGGAAA
37152109 GTTTGGGGGT
Statistics
Matches: 173, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
57 2 0.01
58 33 0.19
59 77 0.45
60 59 0.34
61 2 0.01
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.30
Consensus pattern (59 bp):
AGGGTAAAATGGTAATTTTGGGAAAAATCAGGGTCAAAAAAGGAATTTTTGGAAGTTCA
Found at i:37152094 original size:119 final size:119
Alignment explanation
Indices: 37151847--37152108 Score: 302
Period size: 119 Copynumber: 2.2 Consensus size: 119
37151837 TGGACACATG
* * * *
37151847 AGGGCAAAATGGTAATTTTGGGAAAGTTCGGGGTCAAAAATAGAATTTTTGGATATTCAAGGGTA
1 AGGGTAAAATGGTAATTTTAGGAAAATTCAGGGTCAAAAATAGAATTTTTGGATATTCAAGGGTA
* ** ** *
37151912 AAATGGTAATTTTTGGAAAAATCGGGGTAAAAAAATGGAATTTTTGGAAGTTTG
66 AAATGGTAATTTTGGGAAAAATCAAGGTAAAAAAATGGAATTTTTGGAAAATTC
* * *
37151966 AGGGTAAAATGGTAATTTTAAGGAAAATT-ATGGTCAAAAA-AGGAATTTTTGGA-AGTTTAGGG
1 AGGGTAAAATGGTAATTTT-AGGAAAATTCAGGGTCAAAAATA-GAATTTTTGGATA-TTCAAGG
*
37152028 GTAAAATGGTAA-TTTGGGAAAAATCAAGGTCAAAAAA-GGAATTTTTGGAAAATTC
63 GTAAAATGGTAATTTTGGGAAAAATCAAGGTAAAAAAATGGAATTTTTGGAAAATTC
*
37152083 AGGAGTAAAAAT-GTAATTTTTGGAAA
1 AGG-GT-AAAATGGTAATTTTAGGAAA
37152109 GTTTGGGGGT
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
117 23 0.19
118 33 0.27
119 60 0.49
120 7 0.06
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.30
Consensus pattern (119 bp):
AGGGTAAAATGGTAATTTTAGGAAAATTCAGGGTCAAAAATAGAATTTTTGGATATTCAAGGGTA
AAATGGTAATTTTGGGAAAAATCAAGGTAAAAAAATGGAATTTTTGGAAAATTC
Found at i:37153148 original size:3 final size:3
Alignment explanation
Indices: 37153140--37153175 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
37153130 TTCATTTTCT
37153140 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37153176 CTGTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37153923 original size:18 final size:18
Alignment explanation
Indices: 37153881--37153954 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
37153871 ATAAATAAGT
37153881 TTTAAA-TTTAAATATAAA
1 TTTAAATTTTAAAT-TAAA
* *
37153899 TCT-AATTTTATATTAAA
1 TTTAAATTTTAAATTAAA
**
37153916 TTTAAATTTTAAAACAAA
1 TTTAAATTTTAAATTAAA
*
37153934 TTTAAA-TTTAAAATAAA
1 TTTAAATTTTAAATTAAA
37153951 TTTA
1 TTTA
37153955 TATTCAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
17 22 0.47
18 25 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAAATTTTAAATTAAA
Found at i:37153928 original size:7 final size:6
Alignment explanation
Indices: 37153881--37153954 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
37153871 ATAAATAAGT
* * * *
37153881 TTTAAA TTTAAA TATAAA TCTAAT TTTATA -TTAAA TTTAAA TTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
** *
37153929 -ACAAA TTTAAA TTTAAA -ATAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA
37153955 TATTCAAAAT
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
5 11 0.22
6 34 0.67
7 6 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:37153937 original size:29 final size:29
Alignment explanation
Indices: 37153882--37153937 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
37153872 TAAATAAGTT
* *
37153882 TTAAATTTAAATATAAATCTAATTTTATA
1 TTAAATTTAAATATAAAACTAAATTTATA
*
37153911 TTAAATTTAAATTTTAAAAC-AAATTTA
1 TTAAATTTAAA-TATAAAACTAAATTTA
37153938 AATTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAAATTTAAATATAAAACTAAATTTATA
Found at i:37153945 original size:17 final size:17
Alignment explanation
Indices: 37153881--37153982 Score: 98
Period size: 17 Copynumber: 5.9 Consensus size: 17
37153871 ATAAATAAGT
37153881 TTTAAATTTAAATATAAA
1 TTTAAATTTAAA-ATAAA
* * * *
37153899 TCTAATTTTATATTAAA
1 TTTAAATTTAAAATAAA
*
37153916 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
37153934 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
37153951 TTTATATTCAAAATAAA
1 TTTAAATTTAAAATAAA
**
37153968 -TTAACCTTAAAATAA
1 TTTAAATTTAAAATAA
37153983 CTTTTAAAAT
Statistics
Matches: 67, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
16 11 0.16
17 33 0.49
18 23 0.34
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:37153951 original size:35 final size:35
Alignment explanation
Indices: 37153881--37153954 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
37153871 ATAAATAAGT
* * * *
37153881 TTTAAATTTAAATATAAATCTAATTTTATATTAAA
1 TTTAAATTTAAATACAAATCTAAATTTAAAATAAA
*
37153916 TTTAAATTTTAAA-ACAAATTTAAATTTAAAATAAA
1 TTTAAA-TTTAAATACAAATCTAAATTTAAAATAAA
37153951 TTTA
1 TTTA
37153955 TATTCAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 27 0.82
36 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (35 bp):
TTTAAATTTAAATACAAATCTAAATTTAAAATAAA
Found at i:37154326 original size:22 final size:20
Alignment explanation
Indices: 37154301--37154340 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
37154291 ATACAACTTC
37154301 CAATTTATTTATTATATTAACT
1 CAATTTATTT-TTAT-TTAACT
37154323 CAATTTATTTTTATTTAA
1 CAATTTATTTTTATTTAA
37154341 AAAGGTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (20 bp):
CAATTTATTTTTATTTAACT
Found at i:37155156 original size:8 final size:8
Alignment explanation
Indices: 37155143--37155168 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
37155133 GAATTTTCAT
37155143 TCTCATTC
1 TCTCATTC
37155151 TCTCATTC
1 TCTCATTC
37155159 TCTCATTC
1 TCTCATTC
37155167 TC
1 TC
37155169 ACCCCACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.38, G:0.00, T:0.50
Consensus pattern (8 bp):
TCTCATTC
Found at i:37160926 original size:10 final size:9
Alignment explanation
Indices: 37160913--37161005 Score: 62
Period size: 10 Copynumber: 9.6 Consensus size: 9
37160903 AAGGATTTAT
37160913 TAAATAATTA
1 TAAA-AATTA
37160923 T-AAAATTA
1 TAAAAATTA
37160931 TAAAGAATTA
1 TAAA-AATTA
*
37160941 TTTAAAAAATA
1 --TAAAAATTA
*
37160952 TTAAGAATTA
1 -TAAAAATTA
37160962 TAAAATATTA
1 TAAAA-ATTA
*
37160972 TAAATGATTA
1 TAAA-AATTA
* *
37160982 TTAAAATTTT
1 -TAAAAATTA
37160992 TAAAAATTA
1 TAAAAATTA
37161001 TAAAA
1 TAAAA
37161006 TTTTATTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
8 6 0.09
9 20 0.30
10 28 0.42
11 8 0.12
12 4 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
TAAAAATTA
Found at i:37160965 original size:39 final size:37
Alignment explanation
Indices: 37160910--37161007 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 37
37160900 TAGAAGGATT
37160910 TATTAAATAATTATAAAATTATAAA-GAATTATTTAAAAAA
1 TATTAAA-AATTATAAAATTATAAATG-ATTA-TT-AAAAA
* *
37160950 TATTAAGAATTATAAAATATTATAAATGATTATTAAAAT
1 TATTAAAAATTAT-AAA-ATTATAAATGATTATTAAAAA
*
37160989 TTTTAAAAATTATAAAATT
1 TATTAAAAATTATAAAATT
37161008 TTATTTATAC
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
37 3 0.06
38 3 0.06
39 21 0.41
40 11 0.22
41 12 0.24
42 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (37 bp):
TATTAAAAATTATAAAATTATAAATGATTATTAAAAA
Found at i:37161011 original size:10 final size:10
Alignment explanation
Indices: 37160958--37161011 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 10
37160948 AATATTAAGA
37160958 ATTATAAAAT
1 ATTATAAAAT
37160968 ATTAT-AAAT
1 ATTATAAAAT
37160977 GATTATTAAAAT
1 -ATTA-TAAAAT
*
37160989 -TTTTAAAA-
1 ATTATAAAAT
37160997 ATTATAAAAT
1 ATTATAAAAT
*
37161007 TTTAT
1 ATTAT
37161012 TTATACACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
9 16 0.44
10 15 0.42
11 1 0.03
12 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:37162367 original size:19 final size:20
Alignment explanation
Indices: 37162320--37162391 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
37162310 CTCTCTTTCA
37162320 AAAAAATTACAAAATAATTTT
1 AAAAAATT-CAAAATAATTTT
*
37162341 AAAAAATTCAACATAATTTT
1 AAAAAATTCAAAATAATTTT
*
37162361 -TAAAATTCAAAAT-A-TTT
1 AAAAAATTCAAAATAATTTT
37162378 ACAAAAATTTCAAA
1 A-AAAAA-TTCAAA
37162392 TTTTATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.07
18 1 0.02
19 15 0.34
20 17 0.39
21 8 0.18
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:37163054 original size:3 final size:3
Alignment explanation
Indices: 37163046--37163079 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
37163036 TGTAACTCTT
37163046 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAGA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA
37163080 TTTATTACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:37167089 original size:18 final size:17
Alignment explanation
Indices: 37167053--37167090 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
37167043 TACAAACTTT
37167053 TAAAAATTATAAATATA
1 TAAAAATTATAAATATA
37167070 TAAAAATCTAATAAAT-TA
1 TAAAAAT-T-ATAAATATA
37167088 TAA
1 TAA
37167091 TTTTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATTATAAATATA
Found at i:37167141 original size:21 final size:19
Alignment explanation
Indices: 37167117--37167161 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
37167107 AAAACATATT
*
37167117 TAAAATATTGTAAAAATGTA
1 TAAAATATTATAAAAAT-TA
*
37167137 CTAAAATTTTATAAAAATTA
1 -TAAAATATTATAAAAATTA
37167157 TAAAA
1 TAAAA
37167162 AAAATCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 2 0.09
21 15 0.68
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
TAAAATATTATAAAAATTA
Found at i:37168826 original size:11 final size:11
Alignment explanation
Indices: 37168812--37168848 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
37168802 ATTTTATAAC
37168812 TTTTTTTATGA
1 TTTTTTTATGA
37168823 TTTTTTTAT--
1 TTTTTTTATGA
37168832 TTTTTTTAATGA
1 TTTTTTT-ATGA
37168844 TTTTT
1 TTTTT
37168849 AAGTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.30
10 2 0.09
11 9 0.39
12 5 0.22
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (11 bp):
TTTTTTTATGA
Found at i:37168827 original size:21 final size:22
Alignment explanation
Indices: 37168803--37168849 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
37168793 AATTTAAAAA
37168803 TTTTATAACTTTTTTT-ATGAT
1 TTTTATAACTTTTTTTAATGAT
* *
37168824 TTTT-TTATTTTTTTTAATGAT
1 TTTTATAACTTTTTTTAATGAT
37168845 TTTTA
1 TTTTA
37168850 AGTTTTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTATAACTTTTTTTAATGAT
Found at i:37168855 original size:20 final size:19
Alignment explanation
Indices: 37168802--37168855 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
37168792 TAATTTAAAA
37168802 ATTTTATAACTTTTTTTATG
1 ATTTT-TAACTTTTTTTATG
* *
37168822 ATTTTTTTATTTTTTTTAATG
1 A-TTTTTAACTTTTTTT-ATG
*
37168843 ATTTTTAAGTTTT
1 ATTTTTAACTTTT
37168856 GAAAAGGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (19 bp):
ATTTTTAACTTTTTTTATG
Found at i:37168855 original size:21 final size:20
Alignment explanation
Indices: 37168802--37168848 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
37168792 TAATTTAAAA
* *
37168802 ATTTTATAACTTTTTTTATG
1 ATTTTTTAATTTTTTTTATG
*
37168822 ATTTTTTTATTTTTTTTAATG
1 ATTTTTTAATTTTTTTT-ATG
37168843 ATTTTT
1 ATTTTT
37168849 AAGTTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
ATTTTTTAATTTTTTTTATG
Found at i:37171710 original size:144 final size:144
Alignment explanation
Indices: 37171450--37171735 Score: 545
Period size: 144 Copynumber: 2.0 Consensus size: 144
37171440 GTTACGCGTG
*
37171450 AATTTGGATAGGCGATGTATTTATGTGTTTAGTATAAAAACAGCGGTAACGGTGAGATTAGATAT
1 AATTTGGATAGACGATGTATTTATGTGTTTAGTATAAAAACAGCGGTAACGGTGAGATTAGATAT
*
37171515 TATAGCGAAATTGTACCAAGAGACAAAAAGTAAACTAAACGCACCCCATTGCATCGTCCATCCAA
66 TATAGCGAAATTGTACCAAGAGACAAAAAGTAAACTAAACGCACCACATTGCATCGTCCATCCAA
*
37171580 ATCCACACAAGTAA
131 ACCCACACAAGTAA
37171594 AATTTGGATAGACGATGTATTTATGTGTTTAGTATAAAAACAGCGGTAACGGTGAGATTAGATAT
1 AATTTGGATAGACGATGTATTTATGTGTTTAGTATAAAAACAGCGGTAACGGTGAGATTAGATAT
37171659 TATAGCGAAATTGTACCAAGAGACAAAAAGTAAACTAAACGCACCACATTGCATCGTCCATCCAA
66 TATAGCGAAATTGTACCAAGAGACAAAAAGTAAACTAAACGCACCACATTGCATCGTCCATCCAA
37171724 ACCCACACAAGT
131 ACCCACACAAGT
37171736 CATTTACGTT
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 139 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (144 bp):
AATTTGGATAGACGATGTATTTATGTGTTTAGTATAAAAACAGCGGTAACGGTGAGATTAGATAT
TATAGCGAAATTGTACCAAGAGACAAAAAGTAAACTAAACGCACCACATTGCATCGTCCATCCAA
ACCCACACAAGTAA
Found at i:37174099 original size:72 final size:73
Alignment explanation
Indices: 37174017--37174190 Score: 296
Period size: 72 Copynumber: 2.4 Consensus size: 73
37174007 AACTTAATGG
* *
37174017 GTAAACATTTATCAAAATAACATAGTTTTGCCTTTTAACTTAATGATTTTGACTTTTAACTTT-T
1 GTAAACATTTATCAAAACAACATAGTTTTGCCTTTTAACTTAATGATTTTGACTTTTAACTTTAA
37174081 AAAAAAAA
66 AAAAAAAA
37174089 GTAAACATTTATCAAAACAACATAGTTTTGCCTTTTAACTTAATGATTTTGACTTTTAACTTTAA
1 GTAAACATTTATCAAAACAACATAGTTTTGCCTTTTAACTTAATGATTTTGACTTTTAACTTTAA
37174154 AAAAAAAA
66 AAAAAAAA
* * *
37174162 GTAAATATTTATCAAAACGACGTAGTTTT
1 GTAAACATTTATCAAAACAACATAGTTTT
37174191 ATCTTTTTTT
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 62 0.65
73 34 0.35
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (73 bp):
GTAAACATTTATCAAAACAACATAGTTTTGCCTTTTAACTTAATGATTTTGACTTTTAACTTTAA
AAAAAAAA
Found at i:37174865 original size:21 final size:21
Alignment explanation
Indices: 37174852--37174911 Score: 86
Period size: 22 Copynumber: 2.9 Consensus size: 21
37174842 TTTGTTGTTG
37174852 TTTTTTACTGTTTTGGTTGCTA
1 TTTTTTACTGTTTTGG-TGCTA
**
37174874 TTTTTTGTTGTTTTGGTGCTA
1 TTTTTTACTGTTTTGGTGCTA
37174895 TTTTTTACTG-TTTGGTG
1 TTTTTTACTGTTTTGGTG
37174912 TTGTTTTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.21
21 13 0.38
22 14 0.41
ACGTcount: A:0.07, C:0.07, G:0.22, T:0.65
Consensus pattern (21 bp):
TTTTTTACTGTTTTGGTGCTA
Found at i:37174877 original size:22 final size:22
Alignment explanation
Indices: 37174839--37174907 Score: 88
Period size: 21 Copynumber: 3.2 Consensus size: 22
37174829 ATTATATTGT
* *
37174839 TGTTTT-GTTGTTGTTTTTTAC
1 TGTTTTGGTTGCTATTTTTTAC
**
37174860 TGTTTTGGTTGCTATTTTTTGT
1 TGTTTTGGTTGCTATTTTTTAC
37174882 TGTTTTGG-TGCTATTTTTTAC
1 TGTTTTGGTTGCTATTTTTTAC
37174903 TGTTT
1 TGTTT
37174908 GGTGTTGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 22 0.54
22 19 0.46
ACGTcount: A:0.06, C:0.06, G:0.20, T:0.68
Consensus pattern (22 bp):
TGTTTTGGTTGCTATTTTTTAC
Found at i:37174919 original size:21 final size:21
Alignment explanation
Indices: 37174842--37174919 Score: 54
Period size: 21 Copynumber: 3.7 Consensus size: 21
37174832 ATATTGTTGT
*
37174842 TTTGTTGTTG-TTTTTTACTG
1 TTTGGTGTTGTTTTTTTACTG
* **
37174862 TTTTG-GTTGCTATTTTTTGTTG
1 TTTGGTGTTG-T-TTTTTTACTG
* *
37174884 TTTTGGTGCT-ATTTTTTACTG
1 -TTTGGTGTTGTTTTTTTACTG
37174905 TTTGGTGTTGTTTTT
1 TTTGGTGTTGTTTTT
37174920 GTTGATATTT
Statistics
Matches: 41, Mismatches: 11, Indels: 11
0.65 0.17 0.17
Matches are distributed among these distances:
19 4 0.10
20 11 0.27
21 12 0.29
22 8 0.20
23 4 0.10
24 2 0.05
ACGTcount: A:0.05, C:0.05, G:0.22, T:0.68
Consensus pattern (21 bp):
TTTGGTGTTGTTTTTTTACTG
Found at i:37174930 original size:12 final size:12
Alignment explanation
Indices: 37174905--37174996 Score: 105
Period size: 12 Copynumber: 7.8 Consensus size: 12
37174895 TTTTTTACTG
* *
37174905 TTTGGTGTTGTT
1 TTTGTTGTTATT
*
37174917 TTTGTTGATATT
1 TTTGTTGTTATT
* *
37174929 TTTGTTGCTGTT
1 TTTGTTGTTATT
37174941 TTTGTTGTTATT
1 TTTGTTGTTATT
37174953 TTTGTTGTTA-T
1 TTTGTTGTTATT
**
37174964 TTTGTTACTATT
1 TTTGTTGTTATT
37174976 TTTGTTGTTATT
1 TTTGTTGTTATT
*
37174988 TTTATTGTT
1 TTTGTTGTT
37174997 TAGATATTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
11 9 0.13
12 58 0.87
ACGTcount: A:0.09, C:0.02, G:0.18, T:0.71
Consensus pattern (12 bp):
TTTGTTGTTATT
Found at i:37174943 original size:43 final size:42
Alignment explanation
Indices: 37174835--37174943 Score: 107
Period size: 43 Copynumber: 2.5 Consensus size: 42
37174825 AAAAATTATA
* *
37174835 TTGTTGTTTTGTTGTTGTTTTTTACTGTTTTGGTTGCTATTTT
1 TTGTTGTTTTGTTGCTG-TTTTTACTGTTTGGGTTGCTATTTT
* *
37174878 TTGTTGTTTTGGTGCTATTTTTTACTGTTTGGTGTTG-T-TTTT
1 TTGTTGTTTTGTTGCT-GTTTTTACTGTTTGG-GTTGCTATTTT
37174920 GTTGATAT-TTTTGTTGCTGTTTTT
1 -TTG-T-TGTTTTGTTGCTGTTTTT
37174944 GTTGTTATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
42 4 0.07
43 36 0.65
44 14 0.25
45 1 0.02
ACGTcount: A:0.06, C:0.05, G:0.22, T:0.68
Consensus pattern (42 bp):
TTGTTGTTTTGTTGCTGTTTTTACTGTTTGGGTTGCTATTTT
Found at i:37174966 original size:23 final size:23
Alignment explanation
Indices: 37174916--37174989 Score: 98
Period size: 23 Copynumber: 3.2 Consensus size: 23
37174906 TTGGTGTTGT
37174916 TTTTGTTGATATTTTTGTTGCTGT-
1 TTTTGTTGATATTTTTGTTG-T-TA
*
37174940 TTTTGTTGTTATTTTTGTTGTTA
1 TTTTGTTGATATTTTTGTTGTTA
37174963 TTTTGTT-ACTATTTTTGTTGTTA
1 TTTTGTTGA-TATTTTTGTTGTTA
37174986 TTTT
1 TTTT
37174990 TATTGTTTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.02
23 26 0.57
24 19 0.41
ACGTcount: A:0.09, C:0.03, G:0.16, T:0.72
Consensus pattern (23 bp):
TTTTGTTGATATTTTTGTTGTTA
Found at i:37174978 original size:35 final size:36
Alignment explanation
Indices: 37174905--37174996 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 36
37174895 TTTTTTACTG
* * * * *
37174905 TTTGGTGTTGTTTTTGTTGATATTTTTGTTGCTGTT
1 TTTGTTGTTATTTTTGTTGTTATTTTTGTTACTATT
37174941 TTTGTTGTTATTTTTGTTGTTA-TTTTGTTACTATT
1 TTTGTTGTTATTTTTGTTGTTATTTTTGTTACTATT
*
37174976 TTTGTTGTTATTTTTATTGTT
1 TTTGTTGTTATTTTTGTTGTT
37174997 TAGATATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
35 31 0.62
36 19 0.38
ACGTcount: A:0.09, C:0.02, G:0.18, T:0.71
Consensus pattern (36 bp):
TTTGTTGTTATTTTTGTTGTTATTTTTGTTACTATT
Found at i:37175699 original size:27 final size:27
Alignment explanation
Indices: 37175664--37175723 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
37175654 TTACCCAAAC
* *
37175664 AATTCATATTATTTT-TTATTTTTTTAA
1 AATTTATATTATTTTATT-TTATTTTAA
37175691 AATTTATATTATTTTATTTTATTTTAA
1 AATTTATATTATTTTATTTTATTTTAA
*
37175718 TATTTA
1 AATTTA
37175724 ACAATACACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
AATTTATATTATTTTATTTTATTTTAA
Done.