Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 180 of 240
Found at i:55616775 original size:40 final size:40
Alignment explanation
Indices: 55616692--55616834 Score: 173
Period size: 41 Copynumber: 3.5 Consensus size: 40
55616682 TACCCCTTGG
* * *
55616692 GGAATTTGCACTTAGCAACCCCTCTTTTATCAGAGTTTCGA
1 GGAATCTGCACTTAGCAACCCCT-TTTTATCAGTGATTCGA
*
55616733 GGAATTTGCACTTAGCAA-CCCTTTTTGATCAGTGATTCGA
1 GGAATCTGCACTTAGCAACCCCTTTTT-ATCAGTGATTCGA
*
55616773 GGAATCTGCACTTAACAACCCCTTTTTAATCAGTGATTCTG-
1 GGAATCTGCACTTAGCAACCCCTTTTT-ATCAGTGATTC-GA
* *
55616814 GGAATCTACACTTAGAAACCC
1 GGAATCTGCACTTAGCAACCC
55616835 TTACATTCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
39 4 0.04
40 31 0.34
41 55 0.60
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (40 bp):
GGAATCTGCACTTAGCAACCCCTTTTTATCAGTGATTCGA
Found at i:55618650 original size:18 final size:18
Alignment explanation
Indices: 55618612--55618651 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
55618602 TTACGTCCTT
*
55618612 TACAGATACAGATACAGA
1 TACAGATACAGATACAAA
*
55618630 TACAGATACAGATATAAA
1 TACAGATACAGATACAAA
55618648 TACA
1 TACA
55618652 AATATGCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (18 bp):
TACAGATACAGATACAAA
Found at i:55618655 original size:6 final size:6
Alignment explanation
Indices: 55618612--55618643 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
55618602 TTACGTCCTT
55618612 TACAGA TACAGA TACAGA TACAGA TACAGA TA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TA
55618644 TAAATACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
TACAGA
Found at i:55619040 original size:19 final size:18
Alignment explanation
Indices: 55619001--55619037 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
55618991 ATCACATAAA
55619001 CTTTAGGGTTAAATTAGC
1 CTTTAGGGTTAAATTAGC
*
55619019 CTTTAGGGTTTAATTAGC
1 CTTTAGGGTTAAATTAGC
55619037 C
1 C
55619038 CTTACCGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (18 bp):
CTTTAGGGTTAAATTAGC
Found at i:55620347 original size:18 final size:18
Alignment explanation
Indices: 55620306--55620347 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
55620296 GAATAATAGT
55620306 GCACAAAGCACATTCTGGA
1 GCACAAAGCACATTCT-GA
*
55620325 GCACAAAGCGCATATCT-A
1 GCACAAAGCACAT-TCTGA
55620343 GCACA
1 GCACA
55620348 CGAAATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 12 0.57
20 3 0.14
ACGTcount: A:0.38, C:0.29, G:0.19, T:0.14
Consensus pattern (18 bp):
GCACAAAGCACATTCTGA
Found at i:55622602 original size:23 final size:24
Alignment explanation
Indices: 55622576--55622628 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
55622566 GTGCCGCATT
55622576 TTGGTAC-AGCATGGTGTGTAG-GG
1 TTGGTACGAG-ATGGTGTGTAGAGG
55622599 TTGG-ACGGAGATGGTGTGTAGAGG
1 TTGGTAC-GAGATGGTGTGTAGAGG
55622623 TTGGTA
1 TTGGTA
55622629 GGTAGGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 2 0.08
23 15 0.58
24 8 0.31
25 1 0.04
ACGTcount: A:0.19, C:0.06, G:0.45, T:0.30
Consensus pattern (24 bp):
TTGGTACGAGATGGTGTGTAGAGG
Found at i:55624841 original size:14 final size:15
Alignment explanation
Indices: 55624822--55624850 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55624812 GCAAAACCTC
55624822 TTTATTTTT-TATTT
1 TTTATTTTTATATTT
55624836 TTTATTTTTATATTT
1 TTTATTTTTATATTT
55624851 CAATCCACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATTTTTATATTT
Found at i:55641456 original size:66 final size:66
Alignment explanation
Indices: 55641370--55641550 Score: 213
Period size: 66 Copynumber: 2.7 Consensus size: 66
55641360 GAGAAAGATC
* * * * *
55641370 AAATATCG-GATCTTCTCAAGCTCTTAAACGAGATATCATGTCTTCTCAATCCCAAGCTCTTGAA
1 AAATATCGAG-TCTTCCCAAGCTCTTAAACGAGATATCAAGTCTTCTCAATCCAAAGATCCTGAA
55641434 C-
65 CT
* * *
55641435 ACAATATCGAGTCTTCCCAAGCTCCTAAACGATATATCAAGTCTTCTTAATCCAAAGATCCTGAA
1 A-AATATCGAGTCTTCCCAAGCTCTTAAACGAGATATCAAGTCTTCTCAATCCAAAGATCCTGAA
55641500 CT
65 CT
* * * * *
55641502 AAATATCAAGTCTTCCAAAACTCTTGAACGAGATATCAAGCCTTCTCAA
1 AAATATCGAGTCTTCCCAAGCTCTTAAACGAGATATCAAGTCTTCTCAA
55641551 GTTCCTGAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
65 1 0.01
66 94 0.97
67 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (66 bp):
AAATATCGAGTCTTCCCAAGCTCTTAAACGAGATATCAAGTCTTCTCAATCCAAAGATCCTGAAC
T
Found at i:55642391 original size:25 final size:25
Alignment explanation
Indices: 55642361--55642426 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
55642351 ATTATTATTT
55642361 TATATTTACGAGTCAAATATAGTAG
1 TATATTTACGAGTCAAATATAGTAG
55642386 TATATTTACGAGTCAAATATAGTAG
1 TATATTTACGAGTCAAATATAGTAG
*
55642411 TATATTTACAAGTCAA
1 TATATTTACGAGTCAA
55642427 GTGGTTTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (25 bp):
TATATTTACGAGTCAAATATAGTAG
Found at i:55646476 original size:21 final size:22
Alignment explanation
Indices: 55646450--55646491 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
55646440 GATACTGCTG
55646450 TCACATCGCATCCTCA-AGCTC
1 TCACATCGCATCCTCAGAGCTC
* *
55646471 TCACATGGCCTCCTCAGAGCT
1 TCACATCGCATCCTCAGAGCT
55646492 ATGATTACGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.21, C:0.40, G:0.14, T:0.24
Consensus pattern (22 bp):
TCACATCGCATCCTCAGAGCTC
Found at i:55654150 original size:58 final size:58
Alignment explanation
Indices: 55654079--55654200 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 58
55654069 GTATTCTGAT
* * *
55654079 AAAACGTTCATCTCTTTTGGAAACCCAAGTTTTACCAACTTCTAGCAGATATAAACAG
1 AAAACATTCATCTCTTTTGGAAACCCAAGTTTTACCAACTTCTAGCAGAAATAAACAA
* *
55654137 AAAACATTCATCTCTTTTGGAAACCCAAGTTTTACCTACTTCTAGCAGAAATAAATAA
1 AAAACATTCATCTCTTTTGGAAACCCAAGTTTTACCAACTTCTAGCAGAAATAAACAA
55654195 AAAACA
1 AAAACA
55654201 GTATAAAATC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (58 bp):
AAAACATTCATCTCTTTTGGAAACCCAAGTTTTACCAACTTCTAGCAGAAATAAACAA
Found at i:55656745 original size:6 final size:6
Alignment explanation
Indices: 55656736--55656771 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
55656726 ACTTGGGACC
55656736 TCCGAG TCCGAG TCCGAG TCC--G TCCGAG TCCGAG TC
1 TCCGAG TCCGAG TCCGAG TCCGAG TCCGAG TCCGAG TC
55656772 GTGTTAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
6 24 0.86
ACGTcount: A:0.14, C:0.36, G:0.31, T:0.19
Consensus pattern (6 bp):
TCCGAG
Found at i:55656762 original size:16 final size:16
Alignment explanation
Indices: 55656741--55656771 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
55656731 GGACCTCCGA
55656741 GTCCGAGTCCGAGTCC
1 GTCCGAGTCCGAGTCC
55656757 GTCCGAGTCCGAGTC
1 GTCCGAGTCCGAGTC
55656772 GTGTTAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.35, G:0.32, T:0.19
Consensus pattern (16 bp):
GTCCGAGTCCGAGTCC
Found at i:55657413 original size:8 final size:8
Alignment explanation
Indices: 55657400--55657424 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55657390 TTTTAAATGA
55657400 TATTTTAT
1 TATTTTAT
55657408 TATTTTAT
1 TATTTTAT
55657416 TATTTTAT
1 TATTTTAT
55657424 T
1 T
55657425 TAGTGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:55677762 original size:25 final size:26
Alignment explanation
Indices: 55677716--55677775 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
55677706 TAAACATATG
55677716 AATTATAAAACATGAAAATATA-AAT
1 AATTATAAAACATGAAAATATATAAT
* **
55677741 AATTATAAAATATGAATGTATATAAT
1 AATTATAAAACATGAAAATATATAAT
55677767 -ATATATAAA
1 AAT-TATAAA
55677776 CTATATACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AATTATAAAACATGAAAATATATAAT
Found at i:55677960 original size:13 final size:14
Alignment explanation
Indices: 55677919--55677960 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
55677909 TAATTAACAG
55677919 AAATAAAC-AATAA
1 AAATAAACTAATAA
*
55677932 AAATAAAATAATAA
1 AAATAAACTAATAA
55677946 AAATAAACTAA-AA
1 AAATAAACTAATAA
55677959 AA
1 AA
55677961 CAAATGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATAAACTAATAA
Found at i:55680499 original size:18 final size:18
Alignment explanation
Indices: 55680476--55680520 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
55680466 CAAATCCAAT
*
55680476 TCTCTCAATTCTTTCTAG
1 TCTCTCAATTCTTTCAAG
*
55680494 TCTCTCTAA-TCTTTCAAT
1 TCTCTC-AATTCTTTCAAG
55680512 TCTCTCAAT
1 TCTCTCAAT
55680521 ATTTTAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.20, C:0.29, G:0.02, T:0.49
Consensus pattern (18 bp):
TCTCTCAATTCTTTCAAG
Found at i:55681187 original size:3 final size:3
Alignment explanation
Indices: 55681179--55681218 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
55681169 CTTGGCAATT
*
55681179 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
55681219 CTACTTATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:55685149 original size:9 final size:9
Alignment explanation
Indices: 55685116--55685666 Score: 613
Period size: 9 Copynumber: 61.7 Consensus size: 9
55685106 TTAAAACGCC
55685116 AGTTATGT-
1 AGTTATGTA
55685124 A-TTATGT-
1 AGTTATGTA
55685131 A-TTATGTA
1 AGTTATGTA
55685139 AG-TATTGTA
1 AGTTA-TGTA
55685148 AGTTATGTA
1 AGTTATGTA
55685157 AGTTATGTA
1 AGTTATGTA
*
55685166 AGTTATTTA
1 AGTTATGTA
*
55685175 ATTTATGTA
1 AGTTATGTA
55685184 AGTTATGTA
1 AGTTATGTA
*
55685193 AGTTATGCA
1 AGTTATGTA
55685202 AGTTATGTA
1 AGTTATGTA
*
55685211 AGTTA-CTA
1 AGTTATGTA
*
55685219 CATTTATGTA
1 -AGTTATGTA
55685229 AGTTATGTA
1 AGTTATGTA
* *
55685238 AGATATTTA
1 AGTTATGTA
*
55685247 ATTTATGTA
1 AGTTATGTA
55685256 AGTTATGTA
1 AGTTATGTA
55685265 AGTTATGTA
1 AGTTATGTA
55685274 AGTTACT-TA
1 AGTTA-TGTA
*
55685283 ATTTATGTA
1 AGTTATGTA
55685292 AGTTATGTA
1 AGTTATGTA
* *
55685301 AGATATTTA
1 AGTTATGTA
*
55685310 ATTTATGTA
1 AGTTATGTA
55685319 AGTTATGTA
1 AGTTATGTA
*
55685328 AGTTATTTA
1 AGTTATGTA
*
55685337 ATTTATGTA
1 AGTTATGTA
55685346 AGTTATGTA
1 AGTTATGTA
55685355 AGTTATGTA
1 AGTTATGTA
55685364 AGTTACT-TA
1 AGTTA-TGTA
*
55685373 ATTTATGTA
1 AGTTATGTA
55685382 AGTTATGTA
1 AGTTATGTA
* *
55685391 AGATATTTA
1 AGTTATGTA
*
55685400 ATTTATGTA
1 AGTTATGTA
55685409 AGTTATGTA
1 AGTTATGTA
*
55685418 AGTTATTTA
1 AGTTATGTA
*
55685427 ATTTATGTA
1 AGTTATGTA
55685436 AGTTATGTA
1 AGTTATGTA
55685445 AGTTATGTA
1 AGTTATGTA
55685454 AGTTACT-TA
1 AGTTA-TGTA
*
55685463 ATTTATGTA
1 AGTTATGTA
55685472 AGTTATGTA
1 AGTTATGTA
* *
55685481 AGATATTTA
1 AGTTATGTA
*
55685490 ATTTATGTA
1 AGTTATGTA
55685499 AGTTATGTA
1 AGTTATGTA
*
55685508 AGTTATTTA
1 AGTTATGTA
*
55685517 ATTTATGTA
1 AGTTATGTA
55685526 AGTTATGTA
1 AGTTATGTA
55685535 AGTTATGTA
1 AGTTATGTA
55685544 AGTTACT-TA
1 AGTTA-TGTA
*
55685553 ATTTATGTA
1 AGTTATGTA
55685562 AGTTATGTA
1 AGTTATGTA
* *
55685571 AGATATTTA
1 AGTTATGTA
* *
55685580 ATTTTTGTA
1 AGTTATGTA
55685589 AGTTATGTA
1 AGTTATGTA
55685598 AGTTACT-TA
1 AGTTA-TGTA
*
55685607 ATTTATGTA
1 AGTTATGTA
*
55685616 AGTTATGCA
1 AGTTATGTA
*
55685625 AGTTATTTA
1 AGTTATGTA
* *
55685634 ATTTTTGTA
1 AGTTATGTA
*
55685643 AGTTATATA
1 AGTTATGTA
55685652 A-TTAATGTA
1 AGTT-ATGTA
55685661 AGTTAT
1 AGTTAT
55685667 TTAATTTGTG
Statistics
Matches: 451, Mismatches: 74, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
7 13 0.03
8 13 0.03
9 414 0.92
10 11 0.02
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (9 bp):
AGTTATGTA
Found at i:55685238 original size:90 final size:90
Alignment explanation
Indices: 55685132--55685673 Score: 842
Period size: 90 Copynumber: 6.0 Consensus size: 90
55685122 GTATTATGTA
* * * * *
55685132 TTATGTAAG-TATTGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA-TGTAAG
1 TTATGTAAGTTA-TGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACT-TAAT
* * *
55685195 TTATGCAAGTTATGTAAGTTA-CTACAT
64 TTATGTAAGTTATGTAAGATATTTA-AT
*
55685222 TTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
55685287 ATGTAAGTTATGTAAGATATTTAAT
66 ATGTAAGTTATGTAAGATATTTAAT
55685312 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
55685377 ATGTAAGTTATGTAAGATATTTAAT
66 ATGTAAGTTATGTAAGATATTTAAT
55685402 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
55685467 ATGTAAGTTATGTAAGATATTTAAT
66 ATGTAAGTTATGTAAGATATTTAAT
55685492 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
55685557 ATGTAAGTTATGTAAGATATTTAAT
66 ATGTAAGTTATGTAAGATATTTAAT
* * * * ** *
55685582 TTTTGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGCAAGTTATTTAA-TTTTTGTAAGT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACT-TAATT
* *
55685646 TATATAA-TTAATGTAAGTTATTTAAT
65 TATGTAAGTT-ATGTAAGATATTTAAT
55685672 TT
1 TT
55685674 GTGAACCCTA
Statistics
Matches: 428, Mismatches: 19, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
89 5 0.01
90 418 0.98
91 5 0.01
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (90 bp):
TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTT
ATGTAAGTTATGTAAGATATTTAAT
Found at i:55689707 original size:14 final size:15
Alignment explanation
Indices: 55689676--55689710 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
55689666 TCTGACCCCA
*
55689676 AAATCCCTAAACCTT
1 AAATCCCTAAACCCT
55689691 AAATCCC-AAACCCT
1 AAATCCCTAAACCCT
55689705 AAATCC
1 AAATCC
55689711 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATCCCTAAACCCT
Found at i:55690508 original size:21 final size:20
Alignment explanation
Indices: 55690484--55690568 Score: 53
Period size: 21 Copynumber: 4.0 Consensus size: 20
55690474 ACTAGTTAAT
55690484 CTAAACTGTAAACCATAAACC
1 CTAAACT-TAAACCATAAACC
* * *
55690505 CTAAAATCATAAACCCTTAACAC
1 CT-AAA-CTTAAACCATAAAC-C
* * *
55690528 ATAACCTTAAACCTTAAACC
1 CTAAACTTAAACCATAAACC
* *
55690548 CCAACCTTTAAACCATAAACC
1 CTAAAC-TTAAACCATAAACC
55690569 ATAGACCAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
20 5 0.10
21 26 0.53
22 15 0.31
23 3 0.06
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (20 bp):
CTAAACTTAAACCATAAACC
Found at i:55690509 original size:14 final size:14
Alignment explanation
Indices: 55690492--55690571 Score: 56
Period size: 14 Copynumber: 5.6 Consensus size: 14
55690482 ATCTAAACTG
55690492 TAAACCATAAACCC
1 TAAACCATAAACCC
*
55690506 TAAAATCATAAACCC
1 T-AAACCATAAACCC
* *
55690521 TTAACACAT-AACCT
1 TAAAC-CATAAACCC
*
55690535 TAAACCTTAAACCC
1 TAAACCATAAACCC
* * *
55690549 -CAACCTTTAAACCA
1 TAAACC-ATAAACCC
55690563 TAAACCATA
1 TAAACCATA
55690572 GACCAAATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
13 6 0.12
14 24 0.48
15 20 0.40
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:55691185 original size:189 final size:188
Alignment explanation
Indices: 55690828--55691279 Score: 430
Period size: 189 Copynumber: 2.4 Consensus size: 188
55690818 CGGCGTTCCC
* * ** * *
55690828 CCATAAGCGCCACTAAGTCTAATATACCTCATGAAAAAACTCTGCGTTTTGG-TGAGCATTTTTT
1 CCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAG-ATATTTT
** * * * *** **
55690892 GCGGCGCTTTTTGCCAAGCGCCGCTAATACTATGATTTAGCGGCGTTTTTTGATATGCGCCACTA
65 GCGGCGCTTCCTGCAAAACACCGCTAATACTATGATTTAGCGGCGTTTTCCCATAAACGCCACTA
* * ** *
55690957 ATAACTGTATACATCAAGACAAAAACGTTGCGTTTTGGTTACCAAA-TGTTGCGGCG-TGTA
130 ATAAC--TATACACCAAGACAAAAACGGTGCACTTTGGTTACCAAAGT-TTGCGACGTTGTA
* ** *
55691017 CCCTTTGCGCCACTAATTCTAGTATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTG
1 CCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTG
* * *
55691082 CGGCGCTTCCCT-CAAAACACCGCTAATATTATGCTTTAGCGGCGTTTTCCCTTAAACGCCACTA
66 CGGCGCTT-CCTGCAAAACACCGCTAATACTATGATTTAGCGGCGTTTTCCCATAAACGCCACTA
* ** * * * *
55691146 ACTGTAAC-ATACACCAAGACCAAAACGGTGCACTTTGGTTAGGATAGTTTGTGACGTTTTT
130 A---TAACTATACACCAAGACAAAAACGGTGCACTTTGGTTACCAAAGTTTGCGACGTTGTA
* * * *
55691207 CCATAAGCGCCA-TAAATTCTAACATACCTCTAGACCAAACTCTGCGTTTTGGTTAACATATGTT
1 CCATAAGCGCCACT-AATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTT
55691271 GCGGCGCTT
65 GCGGCGCTT
55691280 TTGGTAAGCG
Statistics
Matches: 212, Mismatches: 43, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
189 138 0.65
190 70 0.33
192 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (188 bp):
CCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTG
CGGCGCTTCCTGCAAAACACCGCTAATACTATGATTTAGCGGCGTTTTCCCATAAACGCCACTAA
TAACTATACACCAAGACAAAAACGGTGCACTTTGGTTACCAAAGTTTGCGACGTTGTA
Found at i:55691458 original size:112 final size:112
Alignment explanation
Indices: 55691200--55691481 Score: 327
Period size: 112 Copynumber: 2.5 Consensus size: 112
55691190 TAGTTTGTGA
* * * ** *
55691200 CGTTTTTCCATAAGCGCCA-TAAATTCTAACATACCTCTAGACCAAACTCTGCGTTTTGGTTAAC
1 CGTTTTTCCATAAGCGCCACT-AATTCTAACATACATCAAGACAAAACAATGCGTTTTCGTTAAC
* *
55691264 ATATGTTGCGGCGCTTTTGGTAAGCGCCGCTAATACTTCCTTTAGCGG
65 ATATGTTGCGGCGCTTTCGGCAAGCGCCGCTAATACTTCCTTTAGCGG
* * * * * * * * *
55691312 CGGGTTTT-CGTAAGCGCCACTAATGCTAATATACAGCGAGATAAAACGATGCGTTTTCGTTAAG
1 C-GTTTTTCCATAAGCGCCACTAATTCTAACATACATCAAGACAAAACAATGCGTTTTCGTTAAC
*
55691376 AT-TTTTGCGGCGCTTTCGGCAATGCGCCGCTAATACTTCCTTTAGCGG
65 ATATGTTGCGGCGCTTTCGGCAA-GCGCCGCTAATACTTCCTTTAGCGG
* *
55691424 CGTTTTTCCATAAACGCCACTAATTCTAGCATACATCAAGACCAAAACAATGCGTTTT
1 CGTTTTTCCATAAGCGCCACTAATTCTAACATACATCAAGA-CAAAACAATGCGTTTT
55691482 GATCTTCAGA
Statistics
Matches: 139, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
111 22 0.16
112 97 0.70
113 20 0.14
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (112 bp):
CGTTTTTCCATAAGCGCCACTAATTCTAACATACATCAAGACAAAACAATGCGTTTTCGTTAACA
TATGTTGCGGCGCTTTCGGCAAGCGCCGCTAATACTTCCTTTAGCGG
Found at i:55693830 original size:40 final size:40
Alignment explanation
Indices: 55693786--55693861 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
55693776 ACAAAAAATC
*
55693786 GAGCATTAGCGGCGATTTAGCC-AAAGCGCCGCTAAAGGTA
1 GAGCATCAGCGGCGATTT-GCCGAAAGCGCCGCTAAAGGTA
* *
55693826 GAGCATCAGCGGCGATTTTCCGGAAGCGCCGCTAAA
1 GAGCATCAGCGGCGATTTGCCGAAAGCGCCGCTAAA
55693862 AATAGGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.28, C:0.25, G:0.30, T:0.17
Consensus pattern (40 bp):
GAGCATCAGCGGCGATTTGCCGAAAGCGCCGCTAAAGGTA
Found at i:55694005 original size:41 final size:41
Alignment explanation
Indices: 55693941--55694219 Score: 244
Period size: 41 Copynumber: 6.8 Consensus size: 41
55693931 TTTTTTAAAC
*
55693941 CTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * * *
55693982 CTTTAGCGGCGTTTTTCTATAAGCGCCGCTATTGCTCGGGT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * * *
55694023 ATTTAGCGGCGTTGTTATCCT-AGCGCCGCTAATTCTCTGG-C
1 CTTTAGCGGCGTTTTTAT-CTAAGCGCCGCTAATGCTC-GGAT
* * * *
55694064 CTTTGGCGGCGTTTTTATGTAAGCGCCGGTAATGGTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * * * *
55694105 CTTTAGCGGCGTTTTTAACTGAGCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGAT
* * * ** *
55694146 CTTCAGCGGCGTTTGTAGCTAAGCGCCGCTAATGCAT-TTAC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCGGAT
* *
55694187 CTTTAGCGGCGTTTTT-GCAAAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTATC-TAAGCGCCGCTAAT
55694220 AGTAACAAAA
Statistics
Matches: 190, Mismatches: 40, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
40 6 0.03
41 179 0.94
42 5 0.03
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
Found at i:55694171 original size:123 final size:123
Alignment explanation
Indices: 55693940--55694202 Score: 302
Period size: 123 Copynumber: 2.1 Consensus size: 123
55693930 ATTTTTTAAA
*
55693940 CCTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCTATAAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCAATAAG
* *
55694005 CGCCGCTATTGCTCGGGTATTTAGCGGCGTTGTTATCCTAGCGCCGCTAATTCTCTGG
66 CGCCACTATTGCTCGGGTATTCAGCGGCGTTGTTATCCTAGCGCCGCTAATTCTCTGG
* * * * * *
55694063 CCTTTGGCGGCGTTTTTATGTAAGCGCCGGTAATGGTCGGATCTTTAGCGGCGTTTTT-AACTGA
1 CCTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCAA-TAA
** * * * **
55694127 GCGCCACTAATT-CTCTTGTCTTCAGCGGCGTT-TGTA-GCTAAGCGCCGCTAATGCAT-TTA
65 GCGCCACT-ATTGCTCGGGTATTCAGCGGCGTTGT-TATCCT-AGCGCCGCTAATTC-TCTGG
55694186 CCTTTAGCGGCGTTTTT
1 CCTTTAGCGGCGTTTTT
55694203 GCAAAAGCGC
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
122 4 0.03
123 110 0.93
124 4 0.03
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (123 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGACGCTAATGCTCGGATCTTTAGCGGCGTTTTTCAATAAG
CGCCACTATTGCTCGGGTATTCAGCGGCGTTGTTATCCTAGCGCCGCTAATTCTCTGG
Found at i:55694734 original size:15 final size:15
Alignment explanation
Indices: 55694713--55694750 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
55694703 TTTAAGGTTA
55694713 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
55694728 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
55694743 ATTTAGGG
1 ATTTAGGG
55694751 TTTCAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:55694753 original size:14 final size:14
Alignment explanation
Indices: 55694686--55694753 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
55694676 TACGGGGTAT
*
55694686 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
55694700 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
55694712 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
55694726 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
55694741 AGATTTAGGGTTT
1 AGATTTAGGGTTT
55694754 CAATTATCGG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:55695726 original size:13 final size:13
Alignment explanation
Indices: 55695708--55695732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55695698 GTTAGAGATT
55695708 TAGGGGTTAGGAG
1 TAGGGGTTAGGAG
55695721 TAGGGGTTAGGA
1 TAGGGGTTAGGA
55695733 ATTTAGGGTC
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:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (13 bp):
TAGGGGTTAGGAG
Found at i:55695729 original size:28 final size:29
Alignment explanation
Indices: 55695686--55695770 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 29
55695676 ATATAAGGTT
* *
55695686 TAGGGGTTAAGGGTTAGAGATTTAGGGGT-
1 TAGGAGTTAGGGGTTAG-GATTTAGGGGTC
55695715 TAGGAG-TAGGGGTTAGGAATTTA-GGGTC
1 TAGGAGTTAGGGGTTAGG-ATTTAGGGGTC
*
55695743 TAGGAGATTTAGGGGTTAGGAGTTAGGG
1 TAGGAG--TTAGGGGTTAGGATTTAGGG
55695771 ATTTAGGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 5 0.11
28 20 0.43
29 5 0.11
30 4 0.09
31 13 0.28
ACGTcount: A:0.25, C:0.01, G:0.45, T:0.29
Consensus pattern (29 bp):
TAGGAGTTAGGGGTTAGGATTTAGGGGTC
Found at i:55695754 original size:16 final size:14
Alignment explanation
Indices: 55695695--55695763 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 14
55695685 TTAGGGGTTA
55695695 AGGGTTA-GAGATTT
1 AGGGTTAGGA-ATTT
*
55695709 AGGGGTTAGG-A-GT
1 A-GGGTTAGGAATTT
55695722 AGGGGTTAGGAATTT
1 A-GGGTTAGGAATTT
55695737 AGGGTCTAGGAGATTT
1 AGGGT-TAGGA-ATTT
55695753 AGGGGTTAGGA
1 A-GGGTTAGGA
55695764 GTTAGGGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
13 11 0.24
14 7 0.15
15 13 0.28
16 11 0.24
17 4 0.09
ACGTcount: A:0.26, C:0.01, G:0.43, T:0.29
Consensus pattern (14 bp):
AGGGTTAGGAATTT
Found at i:55695783 original size:15 final size:15
Alignment explanation
Indices: 55695664--55695786 Score: 78
Period size: 14 Copynumber: 8.5 Consensus size: 15
55695654 TATATGATTA
55695664 TTAGGGTTT-GGGAT
1 TTAGGGTTTAGGGAT
* * *
55695678 ATAAGGTTTAGGGGT
1 TTAGGGTTTAGGGAT
* *
55695693 TAAGGG-TTAGAGAT
1 TTAGGGTTTAGGGAT
*
55695707 TTAGGGGTTA-GGA-
1 TTAGGGTTTAGGGAT
* * *
55695720 GTAGGGGTTAGGAAT
1 TTAGGGTTTAGGGAT
*
55695735 TTAGGGTCTAGGAGAT
1 TTAGGGTTTAGG-GAT
* *
55695751 TTAGGGGTTA-GGAG
1 TTAGGGTTTAGGGAT
55695765 TTAGGGATTTAGGG-T
1 TTAGGG-TTTAGGGAT
55695780 TTAGGGT
1 TTAGGGT
55695787 GTCAGTTAAT
Statistics
Matches: 81, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
13 9 0.11
14 31 0.38
15 29 0.36
16 12 0.15
ACGTcount: A:0.24, C:0.01, G:0.42, T:0.33
Consensus pattern (15 bp):
TTAGGGTTTAGGGAT
Found at i:55698671 original size:22 final size:22
Alignment explanation
Indices: 55698625--55698703 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
55698615 TTACATTACT
*
55698625 TACATTACTTACTAAAATAT-A-G
1 TACATTACTTA--AATATATAACG
55698647 TACATTACTTAAATATATAACG
1 TACATTACTTAAATATATAACG
* *
55698669 TACA--A---AAATTTATAACT
1 TACATTACTTAAATATATAACG
55698686 TACATTACTTAAATATAT
1 TACATTACTTAAATATAT
55698704 TACATTACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
17 14 0.30
19 1 0.02
20 7 0.15
21 1 0.02
22 23 0.50
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.38
Consensus pattern (22 bp):
TACATTACTTAAATATATAACG
Found at i:55698708 original size:18 final size:18
Alignment explanation
Indices: 55698628--55698716 Score: 74
Period size: 18 Copynumber: 4.8 Consensus size: 18
55698618 CATTACTTAC
*
55698628 ATTAC-TTACTAAAATAT
1 ATTACATTACTTAAATAT
*
55698645 AGTACATTACTTAAATAT
1 ATTACATTACTTAAATAT
* * **
55698663 ATAAC-GTACAAAAATTTAT
1 ATTACATTACTTAAA--TAT
55698682 AACTTACATTACTTAAATAT
1 -A-TTACATTACTTAAATAT
55698702 ATTACATTACTTAAA
1 ATTACATTACTTAAA
55698717 CTTTATATAT
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
17 10 0.18
18 28 0.51
19 4 0.07
20 4 0.07
21 3 0.05
22 6 0.11
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTACATTACTTAAATAT
Found at i:55698869 original size:121 final size:121
Alignment explanation
Indices: 55698743--55698966 Score: 369
Period size: 121 Copynumber: 1.9 Consensus size: 121
55698733 AAAATTTAGC
* ***
55698743 TATATGGTATGGATATATAACCTATATTCCAATTTTATT-GTCAATAAATTTTATAATTTTGCCA
1 TATATGGTATGGATATATAACCTATATTCCAATTTTATTAG-AAATAAATTTTATAATTTTAAAA
*
55698807 ATAATTGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCA
65 ATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCA
* *
55698864 TATATGGTATGGATATATAACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAA
1 TATATGGTATGGATATATAACCTATATTCCAATTTTATTAGAAATAAATTTTATAATTTTAAAAA
55698929 TAAATGTAAATGTTATTTTTAAATATTAAAACCTATAT
66 TAAATGTAAATGTTATTTTTAAATATTAAAACCTATAT
55698967 GTTATTTTTA
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
121 94 0.99
122 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (121 bp):
TATATGGTATGGATATATAACCTATATTCCAATTTTATTAGAAATAAATTTTATAATTTTAAAAA
TAAATGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCA
Found at i:55698968 original size:27 final size:27
Alignment explanation
Indices: 55698938--55698993 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
55698928 ATAAATGTAA
55698938 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
55698965 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
55698992 AT
1 AT
55698994 TTTTAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
ATGTTATTTTTAAATATTAAAACCTAT
Found at i:55698978 original size:148 final size:148
Alignment explanation
Indices: 55698817--55699612 Score: 1118
Period size: 148 Copynumber: 5.2 Consensus size: 148
55698807 ATAATTGTAA
55698817 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
1 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
55698882 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
66 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
55698947 TTAAATATTAAAACCTAT
131 TTAAATATTAAAACCTAT
55698965 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
1 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
55699030 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
66 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
55699095 TTAAATATTAAAACCTAT
131 TTAAATATTAAAACCTAT
*
55699113 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCCATATATGGTATGGATATAT
1 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
* *
55699178 ATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
66 AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
55699243 TTAAATATTAAAACCTAT
131 TTAAATATTAAAACCTAT
* * ** * **
55699261 ATGCTATTTTTAAATATTAAAACCTATATGTTATTTTTAA-ATATTAAAACC-TATAT--TTTTA
1 ATGTTATTTTTAAATATTAAAACC--TA---TATTTTTAATATA-TCAGCCCATATATGGTATGG
* *
55699322 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCA-ATTTTATTAGAAATGAATTT
60 ATATAT-A-ACC-TATAT--T-T-CA-AT-T-T--T--A-TT-AGA----------AATGAATTT
55699386 TATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTAT
99 TATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTAT
55699436 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA-CCCTATATATGGTATGGATATA
1 ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCC-ATATATGGTATGGATATA
* *
55699500 TATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATT
65 TAACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATT
55699565 TTTAAATATTAAAACCTAT
130 TTTAAATATTAAAACCTAT
*
55699584 ATGCTATTTTTAAATATTAAAACCTATAT
1 ATGTTATTTTTAAATATTAAAACCTATAT
55699613 GTTATTTTTA
Statistics
Matches: 587, Mismatches: 23, Indels: 76
0.86 0.03 0.11
Matches are distributed among these distances:
148 403 0.69
150 10 0.02
151 1 0.00
152 10 0.02
153 17 0.03
155 1 0.00
156 1 0.00
157 2 0.00
158 5 0.01
159 2 0.00
160 1 0.00
161 1 0.00
162 1 0.00
163 1 0.00
164 2 0.00
165 5 0.01
166 2 0.00
167 1 0.00
168 1 0.00
169 2 0.00
170 15 0.03
171 10 0.02
172 1 0.00
173 10 0.02
175 82 0.14
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (148 bp):
ATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCAGCCCATATATGGTATGGATATAT
AACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTT
TTAAATATTAAAACCTAT
Found at i:55699003 original size:121 final size:120
Alignment explanation
Indices: 55698757--55699003 Score: 272
Period size: 121 Copynumber: 2.0 Consensus size: 120
55698747 TGGTATGGAT
* * * *** *
55698757 ATATAACCTATATTCCAATTTTATTGTCAATAAATTTTATAATTTTGCCAATAATTGTAAATGTT
1 ATATAACCTATATTTCAATTTTATTG-AAATGAATTTTATAATTTTAAAAATAAATGTAAATGTT
* ** **
55698822 ATTTTTAAATATTAAAACC--TA---TATTTTT-AATATATCAGCCCATATATGGTATGGA
65 ATTTTTAAATATTAAAACCTATATGTTATTTTTAAATAT-TAAAACC-TATAT--T-TTTA
55698877 TATATAACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGT
1 -ATATAACCTATATTTCAATTTTATT-GAAATGAATTTTATAATTTTAAAAATAAATGTAAATGT
55698942 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTA
64 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTA
55698999 ATATA
1 ATATA
55699004 TCAGCCCATA
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
121 80 0.75
122 3 0.03
123 3 0.03
125 5 0.05
126 11 0.10
127 5 0.05
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (120 bp):
ATATAACCTATATTTCAATTTTATTGAAATGAATTTTATAATTTTAAAAATAAATGTAAATGTTA
TTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTA
Found at i:55699116 original size:27 final size:27
Alignment explanation
Indices: 55699086--55699141 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
55699076 ATAAATGTAA
55699086 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
55699113 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
55699140 AT
1 AT
55699142 TTTTAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
ATGTTATTTTTAAATATTAAAACCTAT
Found at i:55699271 original size:175 final size:175
Alignment explanation
Indices: 55699090--55699464 Score: 741
Period size: 175 Copynumber: 2.1 Consensus size: 175
55699080 ATGTAAATGT
55699090 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
55699155 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
55699220 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
131 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
55699265 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
55699330 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
*
55699395 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGT
131 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
55699440 TATTTTTAAATATTAAAACCTATAT
1 TATTTTTAAATATTAAAACCTATAT
55699465 TTTTAATATA
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 199 1.00
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (175 bp):
TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
Found at i:55699272 original size:27 final size:27
Alignment explanation
Indices: 55699238--55699316 Score: 149
Period size: 27 Copynumber: 2.9 Consensus size: 27
55699228 ATGTAAATGT
55699238 TATTTTTAAATATTAAAACCTATATGC
1 TATTTTTAAATATTAAAACCTATATGC
*
55699265 TATTTTTAAATATTAAAACCTATATGT
1 TATTTTTAAATATTAAAACCTATATGC
55699292 TATTTTTAAATATTAAAACCTATAT
1 TATTTTTAAATATTAAAACCTATAT
55699317 TTTTAATATA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.47
Consensus pattern (27 bp):
TATTTTTAAATATTAAAACCTATATGC
Found at i:55699439 original size:27 final size:27
Alignment explanation
Indices: 55699409--55699464 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
55699399 ATAAATGTAA
55699409 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
55699436 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
55699463 AT
1 AT
55699465 TTTTAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
ATGTTATTTTTAAATATTAAAACCTAT
Found at i:55699439 original size:323 final size:323
Alignment explanation
Indices: 55698942--55699691 Score: 1450
Period size: 323 Copynumber: 2.3 Consensus size: 323
55698932 ATGTAAATGT
55698942 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
* * *
55699007 GCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
55699072 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
131 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
55699137 TATATTTTTAATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
196 TATATTTTTAATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
55699202 AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
261 AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
55699265 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
55699330 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
55699395 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
131 AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
*
55699460 TATATTTTTAATATATCACCCTATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
196 TATATTTTTAATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
55699525 AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
261 AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
55699588 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTT-A-ATATCA
1 TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
55699651 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTT
66 CCCCATATATGGTATGGATATATATCCTACATTTCAATTTT
55699692 TAATAACTTA
Statistics
Matches: 423, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
321 47 0.11
322 1 0.00
323 375 0.89
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (323 bp):
TATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCA
CCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTTATAATTTT
AAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATATTAAAACC
TATATTTTTAATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGA
AATGAATTTTATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGC
Found at i:55699503 original size:175 final size:174
Alignment explanation
Indices: 55699147--55699676 Score: 590
Period size: 175 Copynumber: 3.0 Consensus size: 174
55699137 TATATTTTTA
55699147 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
1 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
*
55699212 ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGCTATTTTTAAATA
66 ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATA
* * *
55699277 TTAAAACCTATATGTTATTTTTAAATATTAAAACCTATAT-T--T-T-TA-
131 TTAAAACC--TA---TATTTTTAAATA-T-CACCCTATATATGGTATGGAT
55699322 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
1 ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
55699387 ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATA
66 ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATA
55699452 TTAAAACCTATATTTTTAATATATCACCCTATATATGGTATGGAT
131 TTAAAACCTATATTTTTAA-ATATCACCCTATATATGGTATGGAT
** * ** * * ** *
55699497 ATATATC-CTACATTTCAATTTTATTAGAAATGA-AT--T---TTAT-AATTTTAAAAATAAATG
1 ATATATCACCCCATAT--ATGGTA-TGGATAT-ATATCCTACATT-TCAATTTT-ATTAGAAATG
* * ** * *
55699554 TAAATGTTAT--TTTTAAATATTAAAACCTATATGCTATTTTTAAATATTAAAACCTATATGTTA
60 --AATTTTATAATTTTAAA-AAT-AAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTA
*
55699617 TTTTTAAATATTAAAACCTATATTTTT-AATATCACCCCATATATGGTATGGAT
121 TTTTTAAATATTAAAACCTATATTTTTAAATATCACCCTATATATGGTATGGAT
55699670 ATATATC
1 ATATATC
55699677 CTACATTTCA
Statistics
Matches: 317, Mismatches: 21, Indels: 36
0.85 0.06 0.10
Matches are distributed among these distances:
169 8 0.03
170 11 0.03
171 3 0.01
172 9 0.03
173 49 0.15
174 9 0.03
175 216 0.68
176 4 0.01
177 7 0.02
178 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (174 bp):
ATATATCACCCCATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGAAATGAATTTT
ATAATTTTAAAAATAAATGTAAATGTTATTTTTAAATATTAAAACCTATATGTTATTTTTAAATA
TTAAAACCTATATTTTTAAATATCACCCTATATATGGTATGGAT
Found at i:55699595 original size:27 final size:27
Alignment explanation
Indices: 55699561--55699639 Score: 149
Period size: 27 Copynumber: 2.9 Consensus size: 27
55699551 ATGTAAATGT
55699561 TATTTTTAAATATTAAAACCTATATGC
1 TATTTTTAAATATTAAAACCTATATGC
*
55699588 TATTTTTAAATATTAAAACCTATATGT
1 TATTTTTAAATATTAAAACCTATATGC
55699615 TATTTTTAAATATTAAAACCTATAT
1 TATTTTTAAATATTAAAACCTATAT
55699640 TTTTAATATC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.47
Consensus pattern (27 bp):
TATTTTTAAATATTAAAACCTATATGC
Found at i:55699717 original size:16 final size:16
Alignment explanation
Indices: 55699696--55699738 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
55699686 AATTTTTAAT
*
55699696 AACTTACATAATATAC
1 AACTTACATAATACAC
55699712 AACTTACATAATACAC
1 AACTTACATAATACAC
*
55699728 AACTTATATAA
1 AACTTACATAA
55699739 CTTAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:55699859 original size:25 final size:25
Alignment explanation
Indices: 55699787--55700096 Score: 275
Period size: 25 Copynumber: 12.4 Consensus size: 25
55699777 CATTATACAC
* **
55699787 AACTTACATAATACATTACTTACTT
1 AACTTACATAATACATAACTTAAAT
* *
55699812 AACATACATAGCCTACATAACTTAAAT
1 AACTTACATA--ATACATAACTTAAAT
* **
55699839 AATTTACATGTTACATAACTTAAAT
1 AACTTACATAATACATAACTTAAAT
***
55699864 AACTTACATAATACATAACTTTGGT
1 AACTTACATAATACATAACTTAAAT
* * * * *
55699889 AACTAACATTATACACATCTTACAT
1 AACTTACATAATACATAACTTAAAT
* **
55699914 AATTTACATGTTACATAACTTAAAT
1 AACTTACATAATACATAACTTAAAT
**
55699939 AACTTACATAATACATAACTTTGAT
1 AACTTACATAATACATAACTTAAAT
* * *
55699964 AACTTACATAATACACATCTTACAT
1 AACTTACATAATACATAACTTAAAT
* ** *
55699989 AATTTACA-ACCACTTAACTTAAAT
1 AACTTACATAATACATAACTTAAAT
55700013 AACTTACATAATACATAACTTAAAT
1 AACTTACATAATACATAACTTAAAT
**
55700038 AACTTACATAATACATAACTTTGAT
1 AACTTACATAATACATAACTTAAAT
* * * *
55700063 AACTAACATTATACACAACTTACAT
1 AACTTACATAATACATAACTTAAAT
55700088 AA--TACATAA
1 AACTTACATAA
55700097 CTTACTTAAC
Statistics
Matches: 224, Mismatches: 58, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
23 5 0.02
24 17 0.08
25 184 0.82
27 18 0.08
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.34
Consensus pattern (25 bp):
AACTTACATAATACATAACTTAAAT
Found at i:55699927 original size:75 final size:75
Alignment explanation
Indices: 55699825--55700229 Score: 424
Period size: 75 Copynumber: 5.5 Consensus size: 75
55699815 ATACATAGCC
* * *
55699825 TACATAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGGTA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
55699890 ACTAACATTA
66 ACTAACATTA
*
55699900 TACACATCTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
* *
55699965 ACTTACATAA
66 ACTAACATTA
* *** * **
55699975 TACACATCTTACATAATTTACA-ACCACTTAACTTAAATAACTTACATAATACATAACTTAAATA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
* *
55700039 ACTTACATAA
66 ACTAACATTA
* ** * * * ***
55700049 TACATAACTTTGATAACTAACA--TT--AT-AC----ACAACTTACATAATACATAACTTACTTA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
55700105 AC-ATACA-TA
66 ACTA-ACATTA
55700114 GCCTACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTG
1 ---TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTG
*
55700179 CTAACTAACATTA
63 ATAACTAACATTA
*
55700192 TACACAACTTACATAA--TACATTACTTACATAACTTAAA
1 TACACAACTTACATAATTTACA-T-GTTACATAACTTAAA
55700230 GCATAATAAT
Statistics
Matches: 277, Mismatches: 36, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
65 1 0.00
66 30 0.11
68 17 0.06
70 4 0.01
71 1 0.00
72 2 0.01
73 6 0.02
74 63 0.23
75 121 0.44
77 29 0.10
78 3 0.01
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (75 bp):
TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATA
ACTAACATTA
Found at i:55699942 original size:50 final size:50
Alignment explanation
Indices: 55699825--55700286 Score: 259
Period size: 50 Copynumber: 9.2 Consensus size: 50
55699815 ATACATAGCC
* *
55699825 TACATAACTTAAATAATTTACATGT-TACATAACTTAAATAACTTACATAA
1 TACATAACTTAAATAACTTACAT-TATACACAACTTAAATAACTTACATAA
*** * * * * **
55699875 TACATAACTTTGGTAACTAACATTATACACATCTTACATAATTTACATGT
1 TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATAA
* * **
55699925 TACATAACTTAAATAACTTACATAATACATAACTTTGATAACTTACATAA
1 TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATAA
* * * * *
55699975 TACACATCTTACATAATTTACA--A-CCACTTAACTTAAATAACTTACATAA
1 TACATAACTTAAATAACTTACATTATACAC--AACTTAAATAACTTACATAA
* * ** *
55700024 TACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACAT--
1 TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATAA
* * * ** * *
55700072 T--AT-AC----ACAACTTACATAATACATAACTTACTTAACATACATAGCC
1 TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATA--A
* * * *
55700117 TACACAACTTACATAATTTACATGT-TACATAACTTAAATAACTTACATAA
1 TACATAACTTAAATAACTTACAT-TATACACAACTTAAATAACTTACATAA
*** * * *
55700167 TACATAACTTTGCTAACTAACATTATACACAACTTACATAATACATTACTTACA
1 TACATAACTTAAATAACTTACATTATACACAACTTAAAT-A-AC-TTACATA-A
* * * * * *
55700221 TAACTTAAAGCATAATAATAACTTACATAATACACAACTTACATAGCTTACACAA
1 T-ACAT-AA-C-TTA-AATAACTTACATTATACACAACTTAAATAACTTACATAA
55700276 TACATAACTTA
1 TACATAACTTA
55700287 CCCGTGCAAT
Statistics
Matches: 309, Mismatches: 75, Indels: 55
0.70 0.17 0.13
Matches are distributed among these distances:
41 30 0.10
45 3 0.01
46 2 0.01
47 3 0.01
48 4 0.01
49 38 0.12
50 137 0.44
51 4 0.01
52 35 0.11
53 8 0.03
54 5 0.02
55 5 0.02
56 7 0.02
57 2 0.01
58 2 0.01
59 24 0.08
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (50 bp):
TACATAACTTAAATAACTTACATTATACACAACTTAAATAACTTACATAA
Found at i:55700015 original size:9 final size:9
Alignment explanation
Indices: 55699782--55700287 Score: 239
Period size: 9 Copynumber: 60.3 Consensus size: 9
55699772 ACTAACATTA
*
55699782 TACACAACT
1 TACATAACT
55699791 TACATAA--
1 TACATAACT
*
55699798 TACATTACT
1 TACATAACT
* *
55699807 TACTTAACA
1 TACATAACT
* *
55699816 TACATAGCC
1 TACATAACT
55699825 TACATAACT
1 TACATAACT
* *
55699834 TAAATAATT
1 TACATAACT
*
55699843 TACAT--GT
1 TACATAACT
55699850 TACATAACT
1 TACATAACT
*
55699859 TAAATAACT
1 TACATAACT
55699868 TACATAA--
1 TACATAACT
55699875 TACATAACT
1 TACATAACT
***
55699884 TTGGTAACT
1 TACATAACT
* *
55699893 AACATTA--
1 TACATAACT
* *
55699900 TACACATCT
1 TACATAACT
*
55699909 TACATAATT
1 TACATAACT
*
55699918 TACAT--GT
1 TACATAACT
55699925 TACATAACT
1 TACATAACT
*
55699934 TAAATAACT
1 TACATAACT
55699943 TACATAA--
1 TACATAACT
55699950 TACATAACT
1 TACATAACT
**
55699959 TTGATAACT
1 TACATAACT
55699968 TACATAA--
1 TACATAACT
* *
55699975 TACACATCT
1 TACATAACT
*
55699984 TACATAATT
1 TACATAACT
55699993 TAC--AAC-
1 TACATAACT
* *
55699999 CACTTAACT
1 TACATAACT
*
55700008 TAAATAACT
1 TACATAACT
55700017 TACATAA--
1 TACATAACT
55700024 TACATAACT
1 TACATAACT
*
55700033 TAAATAACT
1 TACATAACT
55700042 TACATAA--
1 TACATAACT
55700049 TACATAACT
1 TACATAACT
**
55700058 TTGATAACT
1 TACATAACT
* *
55700067 AACATTA--
1 TACATAACT
*
55700074 TACACAACT
1 TACATAACT
55700083 TACATAA--
1 TACATAACT
55700090 TACATAACT
1 TACATAACT
* *
55700099 TACTTAACA
1 TACATAACT
* *
55700108 TACATAGCC
1 TACATAACT
*
55700117 TACACAACT
1 TACATAACT
*
55700126 TACATAATT
1 TACATAACT
*
55700135 TACAT--GT
1 TACATAACT
55700142 TACATAACT
1 TACATAACT
*
55700151 TAAATAACT
1 TACATAACT
55700160 TACATAA--
1 TACATAACT
55700167 TACATAACTT
1 TACATAAC-T
*
55700177 TGC-TAACT
1 TACATAACT
* *
55700185 AACATTA--
1 TACATAACT
*
55700192 TACACAACT
1 TACATAACT
55700201 TACATAA--
1 TACATAACT
*
55700208 TACATTACT
1 TACATAACT
55700217 TACATAACT
1 TACATAACT
55700226 TAAAGCATAA--
1 T--A-CATAACT
55700236 TA-ATAACT
1 TACATAACT
55700244 TACATAA--
1 TACATAACT
*
55700251 TACACAACT
1 TACATAACT
*
55700260 TACATAGCT
1 TACATAACT
*
55700269 TACACAA--
1 TACATAACT
55700276 TACATAACT
1 TACATAACT
55700285 TAC
1 TAC
55700288 CCGTGCAATT
Statistics
Matches: 359, Mismatches: 93, Indels: 90
0.66 0.17 0.17
Matches are distributed among these distances:
6 6 0.02
7 102 0.28
8 8 0.02
9 234 0.65
10 3 0.01
11 1 0.00
12 5 0.01
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:55700047 original size:99 final size:99
Alignment explanation
Indices: 55699907--55700090 Score: 305
Period size: 99 Copynumber: 1.9 Consensus size: 99
55699897 TTATACACAT
* * ** *
55699907 CTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGATAACTTACA
1 CTTAAATAACTTACATAATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACA
*
55699972 TAATACACATCTTACATAATTTACAACCACTTAA
66 TAATACACAACTTACATAATTTACAACCACTTAA
55700006 CTTAAATAACTTACATAATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACA
1 CTTAAATAACTTACATAATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACA
*
55700071 TTATACACAACTTACATAAT
66 TAATACACAACTTACATAAT
55700091 ACATAACTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 78 1.00
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (99 bp):
CTTAAATAACTTACATAATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACA
TAATACACAACTTACATAATTTACAACCACTTAA
Found at i:55700111 original size:25 final size:25
Alignment explanation
Indices: 55700074--55700207 Score: 117
Period size: 25 Copynumber: 5.3 Consensus size: 25
55700064 ACTAACATTA
*
55700074 TACACAACTTACATAATACATAACT
1 TACATAACTTACATAATACATAACT
* * * *
55700099 TACTTAACATACATAGCCTACACAACT
1 TACATAACTTACATA--ATACATAACT
* **
55700126 TACATAATTTACATGTTACATAACT
1 TACATAACTTACATAATACATAACT
*
55700151 TAAATAACTTACATAATACATAACTT
1 TACATAACTTACATAATACATAAC-T
* * * *
55700177 TGC-TAACTAACATTATACACAACT
1 TACATAACTTACATAATACATAACT
55700201 TACATAA
1 TACATAA
55700208 TACATTACTT
Statistics
Matches: 84, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
24 3 0.04
25 60 0.71
26 2 0.02
27 19 0.23
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:55700147 original size:174 final size:173
Alignment explanation
Indices: 55699785--55700148 Score: 439
Period size: 174 Copynumber: 2.1 Consensus size: 173
55699775 AACATTATAC
* * ** * * *
55699785 ACAACTTACATAATACA-TTACTTACTTAACATACATAGCCTACATAACTTAAATAATTTACATG
1 ACAACTTACATAATACACAT-CTTACATAATTTACA-A-CC-ACTTAACTTAAATAACTTACATA
* * *
55699849 TTACATAACTTAAATAACTTACATAATACATAACTTTGGTAACTAACATTATACACATCTTACAT
62 ATACATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACAT
* * * *
55699914 AATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTG
127 AA-TTACATCTTACATAACATAAATAACCTACACAATACATAACTTTG
*
55699962 ATAACTTACATAATACACATCTTACATAATTTACAACCACTTAACTTAAATAACTTACATAATAC
1 ACAACTTACATAATACACATCTTACATAATTTACAACCACTTAACTTAAATAACTTACATAATAC
55700027 ATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAA-T
66 ATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAATT
* * *
55700091 ACATAACTTACTTAACATACATAGCCTACACAACTTACATAA-TTT-
131 ACAT--CTTACATAACATAAATAACCTACACAA--TACATAACTTTG
**
55700136 ACATGTTACATAA
1 ACAACTTACATAA
55700149 CTTAAATAAC
Statistics
Matches: 161, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
172 5 0.03
174 114 0.71
175 5 0.03
176 8 0.05
177 28 0.17
178 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (173 bp):
ACAACTTACATAATACACATCTTACATAATTTACAACCACTTAACTTAAATAACTTACATAATAC
ATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAATT
ACATCTTACATAACATAAATAACCTACACAATACATAACTTTG
Found at i:55700167 original size:118 final size:118
Alignment explanation
Indices: 55699964--55700285 Score: 389
Period size: 118 Copynumber: 2.8 Consensus size: 118
55699954 TAACTTTGAT
* * ** **
55699964 AACTTACATAATACACATCTTACATAATTTACA-A-CC-ACTTAACTTAAATAACTTACATAATA
1 AACTTACATAATACATAACTTACATAACATACATAGCCTACACAACTTAAATAACTTACATAATA
55700026 CATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACAC
66 CATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACAC
* * * **
55700079 AACTTACATAATACATAACTTACTTAACATACATAGCCTACACAACTTACATAATTTACATGTTA
1 AACTTACATAATACATAACTTACATAACATACATAGCCTACACAACTTAAATAACTTACATAATA
*
55700144 CATAACTTAAATAACTTACATAATACATAACTTTGCTAACTAACATTATACAC
66 CATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACAC
* * *
55700197 AACTTACATAATACATTACTTACATAACTTA-A-AG----CATAA--T-AATAACTTACATAATA
1 AACTTACATAATACATAACTTACATAACATACATAGCCTACACAACTTAAATAACTTACATAATA
* * * *
55700253 CACAACTTACATAGCTTACACAATACATAACTT
66 CATAACTTAAATAACTTACATAATACATAACTT
55700286 ACCCGTGCAA
Statistics
Matches: 180, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
109 41 0.23
110 1 0.01
112 4 0.02
115 28 0.16
116 3 0.02
117 3 0.02
118 100 0.56
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (118 bp):
AACTTACATAATACATAACTTACATAACATACATAGCCTACACAACTTAAATAACTTACATAATA
CATAACTTAAATAACTTACATAATACATAACTTTGATAACTAACATTATACAC
Found at i:55700282 original size:292 final size:287
Alignment explanation
Indices: 55699752--55700287 Score: 803
Period size: 292 Copynumber: 1.8 Consensus size: 287
55699742 AAATAGAAAC
*
55699752 ACATAATAATAACTTTGATAACTAACATTATACACAACTTACATAATACATTACTTACTTAACAT
1 ACATAATAATAACTTTGATAACTAACATTATACACAACTTACATAATACATAACTTACTTAACAT
*
55699817 ACATAGCCTACATAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAA
66 ACATAGCCTACACAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAA
* * *
55699882 CTTTGGTAACTAACATTATACACATCTTACATAATTTACATGTTACATAACTTAAATAACTTACA
131 CTTTGCTAACTAACATTATACACAACTTACATAA-TTACATCTTACATAACTTAAATAAC-TACA
** * * *
55699947 TAATACATAACTTTGATAACTTACATAATACACATCTTACATAATTTACAACCACTTAACTTAAA
194 TAATACATAAC-TACACAACTTACATAATACACA-CATACATAACTTACAACCACTTAACTTAAA
55700012 TAACTTACATAATACATAACTTAAATAACTT
257 TAACTTACATAATACATAACTTAAATAACTT
55700043 ACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAATACATAACTTACTTAACA
1 ACATAATA-ATAACTTTGATAACTAACATTATACACAACTTACATAATACATAACTTACTTAACA
*
55700108 TACATAGCCTACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATA
65 TACATAGCCTACACAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATA
55700173 ACTTTGCTAACTAACATTATACACAACTTACATAA-TACATTACTTACATAACTTAAAGCATAA-
130 ACTTTGCTAACTAACATTATACACAACTTACATAATTACA-T-CTTACATAACTT-AA--ATAAC
*
55700236 TA-ATAACTTACATAA-TACACAACTTACATAGCTTACACA-ATACATAACTTAC
190 TACATAA--TACATAACTACACAACTTACATA--ATACACACATACATAACTTAC
55700288 CCGTGCAATT
Statistics
Matches: 223, Mismatches: 12, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
290 4 0.02
291 9 0.04
292 189 0.85
293 4 0.02
294 13 0.06
295 4 0.02
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (287 bp):
ACATAATAATAACTTTGATAACTAACATTATACACAACTTACATAATACATAACTTACTTAACAT
ACATAGCCTACACAACTTAAATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAA
CTTTGCTAACTAACATTATACACAACTTACATAATTACATCTTACATAACTTAAATAACTACATA
ATACATAACTACACAACTTACATAATACACACATACATAACTTACAACCACTTAACTTAAATAAC
TTACATAATACATAACTTAAATAACTT
Found at i:55705776 original size:66 final size:66
Alignment explanation
Indices: 55705670--55705839 Score: 225
Period size: 66 Copynumber: 2.6 Consensus size: 66
55705660 AGCAAATTAC
* * *
55705670 ACAACTTAAAGCAGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAG
*
55705734 CT
65 CA
*
55705736 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAACAAAAGTATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGC
55705801 A
66 A
* * * * * *
55705802 ACAGCTTAGAGCAGATGCGGCGGCAAGAGAAGCAGAGG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
55705840 CGGCAGCGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 86 0.95
67 5 0.05
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.14
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGC
A
Found at i:55705835 original size:21 final size:21
Alignment explanation
Indices: 55705811--55705854 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
55705801 AACAGCTTAG
* *
55705811 AGCAGATGCGGCGGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
*
55705832 AGCAGAGGCGGCAGCGAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
55705853 AG
1 AG
55705855 TACAGGCTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.02
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCAAGAGA
Found at i:55705861 original size:21 final size:21
Alignment explanation
Indices: 55705830--55705922 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
55705820 GGCGGCAAGA
* *
55705830 GAAGCAGAGGCGGCAGCGAGA
1 GAAGCAGAGGCTGCAGCGAGG
* * *
55705851 GAAGTACAGGCTACAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
* **
55705872 GAAGCAAAGGCTAAAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
*
55705893 GAAGTAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
55705914 GAAGCAGAG
1 GAAGCAGAG
55705923 CAGCGTCAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.05
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAGCGAGG
Found at i:55706129 original size:43 final size:42
Alignment explanation
Indices: 55706036--55706266 Score: 171
Period size: 43 Copynumber: 5.4 Consensus size: 42
55706026 ATTTTTGGTC
* * *
55706036 AAAGCGCCGCTAAAGATTAGGGTCTTTTGCGGCGTTTGTGGAA-
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGT--AAT
* *
55706079 AAGGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
* * * **
55706121 GAAAGCGCCGCTAAAGACCCCTGATCTTTAGCGGCGCTTATCCCAA-
1 -AAAGCGCCGCTAAAGA-TCATGGTCTTTAGCGGCG-TT-T-GTAAT
* * * * *
55706167 AAA-TGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTCTACT
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
* * ** * **
55706208 AAAGCGCCGCTAAAGGTCTTATTCTTCAGCGGCGTTTGTGCT
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
55706250 AGAAGCGCCGCTAAAGA
1 A-AAGCGCCGCTAAAGA
55706267 CCAACACCTT
Statistics
Matches: 148, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.01
41 6 0.04
42 30 0.20
43 76 0.51
44 26 0.18
45 5 0.03
46 1 0.01
47 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTAAT
Found at i:55709142 original size:124 final size:124
Alignment explanation
Indices: 55708807--55709182 Score: 628
Period size: 123 Copynumber: 3.0 Consensus size: 124
55708797 TTAGGGGTTT
* ** * *
55708807 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAATATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTC-TTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
55708872 AGGATGCTATTTGAGAAGAATTTGTGAAACCGCGCCCTCGTGGACGCGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
55708932 TAGGTCATGGAAGAAATAATTT-TTTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGTA
1 TAGGTCATGGAAGAAATAATTTCTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
*
55708996 GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTACTACAG
66 GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
55709055 TCGGTCATGGAAGAAATAATTTCTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
1 TAGGTCATGGAAGAAATAATTTCTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
55709120 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
55709180 TAG
1 TAG
55709183 CATGTTTGGG
Statistics
Matches: 234, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
123 113 0.48
124 64 0.27
125 57 0.24
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (124 bp):
TAGGTCATGGAAGAAATAATTTCTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:55712372 original size:17 final size:17
Alignment explanation
Indices: 55712305--55712372 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
55712295 TATGTGAATG
*
55712305 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
55712321 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
55712340 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
55712359 TAAAATTATTAATT
1 TAAAATTATTAATT
55712373 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:55712397 original size:117 final size:115
Alignment explanation
Indices: 55712190--55712434 Score: 402
Period size: 115 Copynumber: 2.1 Consensus size: 115
55712180 TAAGTTTGTG
*
55712190 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAAATTATCAAATTATATAAAATTATTA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAAATTATCAAATTATATAAAATTATTA
* * * *
55712255 ATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
65 ATTGTTAGTACCAG-AAAAAAAATTTTCCAAATCTAACATTATGTGAAAGTA
55712307 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
55712371 TTGTTAGTACCAGGAAAAAATAATTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTTAGTACCA-GAAAAAA-AATTTTCCAAATCTAACATTATGTGAAAGTA
55712423 AAATTATTAATT
1 AAATTATTAATT
55712435 TAGTTTAGGG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
115 45 0.37
116 42 0.35
117 34 0.28
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (115 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
TTGTTAGTACCAGAAAAAAAATTTTCCAAATCTAACATTATGTGAAAGTA
Found at i:55712460 original size:23 final size:22
Alignment explanation
Indices: 55712428--55713449 Score: 823
Period size: 23 Copynumber: 45.1 Consensus size: 22
55712418 AAGTAAAATT
*
55712428 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
*
55712451 ATTAAATTAGGTTAGAGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
55712474 AGTTTAGGGTTTAGGATTTAGGGTTTTTA
1 A--TTA---ATTAGG--TTAGGGTTTTTA
*
55712503 ATTAAATTAAGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
55712526 AGTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
**
55712549 AGTTAA-GGGGTT-GGGATTTTTA
1 A-TTAATTAGGTTAGGG-TTTTTA
*
55712571 A--ATTTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
55712593 AGTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
55712616 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
55712638 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
55712661 AGTT--TAAGGTTTAGGG-TTTTA
1 A-TTAATTAGG-TTAGGGTTTTTA
55712682 ATTAAATTAGGTTAGGGTTTTTTA
1 ATT-AATTAGGTTAGGG-TTTTTA
* *
55712706 TTTAATTAGGTTAAGGTTTTTA
1 ATTAATTAGGTTAGGGTTTTTA
* *
55712728 AGT--TTAGGGTTTAGGATTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
55712750 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
55712773 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
55712796 AGTTAATTAGGTTAAGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
55712819 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
55712842 AGTTAATTAGGTTAAGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
55712865 AGTTAAGCGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
55712888 AGT--TTAGAGTTTAGGGTTTTTA
1 ATTAATTAG-G-TTAGGGTTTTTA
* *
55712910 ATTTAATTAGTTTAGGGGTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
55712933 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
55712956 A--GATTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
55712978 ATTAATTAGGTTAGGGTTTTTA
1 ATTAATTAGGTTAGGGTTTTTA
55713000 ATTAAATTAGGTTAGGG-TTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
55713022 ATTAATT-GGTTAGGGTTTTTA
1 ATTAATTAGGTTAGGGTTTTTA
* *
55713043 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
55713065 ATTAAATTAGGTTAGGATTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
55713088 ATTAAATTAGGTTAGGGTTTTGA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
55713111 GTTAATTAGGTTAAGGTTTTTA
1 ATTAATTAGGTTAGGGTTTTTA
*
55713133 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
55713155 ATTAAATTGGGTTAGGG-TTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
55713177 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
55713199 ATTAAATTAGGTTAGGGTTTCTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
55713222 AGT--TTAGGGTTTAAGG-TTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
55713243 ATTAAATTAGGTTAGAGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
55713266 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* * *
55713289 AGTTCA--GGGTTTAAGG-TTTTA
1 A-TTAATTAGG-TTAGGGTTTTTA
*
55713310 ATTAAATTAGGTTAGAGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
55713333 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
55713356 AGTTAATTAAGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
55713379 AGTTAA-AAGGGTTAGGGTTTTTA
1 A-TTAATTA-GGTTAGGGTTTTTA
* *
55713402 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
55713424 ATTAAATTAGGTTAAGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
55713447 ATT
1 ATT
55713450 TAAGGGTATT
Statistics
Matches: 822, Mismatches: 94, Indels: 166
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.01
20 31 0.04
21 63 0.08
22 207 0.25
23 424 0.52
24 41 0.05
25 31 0.04
27 7 0.01
28 1 0.00
29 12 0.01
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (22 bp):
ATTAATTAGGTTAGGGTTTTTA
Found at i:55712597 original size:67 final size:65
Alignment explanation
Indices: 55712504--55713405 Score: 616
Period size: 67 Copynumber: 13.4 Consensus size: 65
55712494 GGGTTTTTAA
*
55712504 TTAAA-TTAAGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGTT-GGGATT
1 TTAAATTTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGG-TT
55712567 T
65 T
* *
55712568 TTAAATTTAGGGTTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGT
1 TTAAATTTA-GG-TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGT
55712633 TT
64 TT
* * **
55712635 TTAATTAAATTAGGTTAGGGTTTTTAAGTT--TAAGGTTTAGGG-TTTTAA-TTAAATTAGGTTA
1 TT-A--AATTTAGGTTAGGGTTTTTAAGTTAATTAGG-TTAGGGTTTTTAAGTT-AA-GGGGTTA
55712696 GGGTTTT
60 GGG-TTT
* * **
55712703 TTATTTAA-TTAGGTTAAGGTTTTTAAG-T--TTAGGGTTTAGGATTTTTAA-TTAAATTAGGTT
1 TTA---AATTTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGTT-AA-GGGGTT
55712763 AGGGTTT
59 AGGGTTT
* *
55712770 TTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAAGGTTTTTAAGTTAAGGGGGTTAGG
1 TTAA---ATTTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA-GGGGTTAGG
55712835 GTTT
62 GTTT
* * *** * * *
55712839 TTAAGTTAATTAGGTTAAGGTTTTTAAGTTAAGCGGGTTAGGGTTTTTAAGTTTAGAGTTTAGGG
1 TTAA---ATTTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGG
55712904 TTT
63 TTT
* * * * *
55712907 TTAATTTAATTAGTTTAGGGGTTTTAATTTAATTAGGTTAGGGTTTTTAAGATT-AGGGTTTAGG
1 TTAA---ATTTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAG-TTAAGGGGTTAGG
55712971 GTTT
62 GTTT
* **
55712975 TTAATTAATTAGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGG-TTTTAA-TTAATTGGTTAGGG
1 TTAA--ATTTAGGTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGG
55713037 TTT
63 TTT
* * * **
55713040 TTAAGTTTAGGGTTTAAGGTTTTTAA-TTAAATTAGGTTAGGATTTTTAA-TTAAATTAGGTTAG
1 TTAAATTTA-GG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTT-AA-GGGGTTAG
55713103 GGTTT
61 GGTTT
* * *
55713108 TGAGTTAA-TTAGGTTAAGGTTTTTAAG-T--TTAGGGTTTAGGGTTTTTAA-TTAAATTGGGTT
1 T---TAAATTTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGTT-AA-GGGGTT
55713168 AGGG-TT
59 AGGGTTT
* * * * *
55713174 TTAAGTTTAGGGTTTAAGGTTTTTAA-TTAAATTAGGTTAGGGTTTCTAAGTTTAGGGTTTAAGG
1 TTAAATTTA-GG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAGGGGTT-AGG
*
55713238 TTTT
62 GTTT
* * *
55713242 AATTAAA-TTAGGTTAGAGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTCAGGGTTTAAGG
1 --TTAAATTTAGGTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAGGGGTT-AGG
*
55713305 TTTT
62 GTTT
* * ***
55713309 AATTAAA-TTAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAAGTTAGGG
1 --TTAAATTTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA-GGGGTTAGGG
55713373 TTT
63 TTT
* *
55713376 TTAAGTTAAAAGGGTTAGGGTTTTTAAGTT
1 TTAAATT--TA-GGTTAGGGTTTTTAAGTT
55713406 TAGGGTTTAA
Statistics
Matches: 712, Mismatches: 72, Indels: 103
0.80 0.08 0.12
Matches are distributed among these distances:
63 5 0.01
64 13 0.02
65 56 0.08
66 55 0.08
67 281 0.39
68 180 0.25
69 101 0.14
70 16 0.02
71 5 0.01
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (65 bp):
TTAAATTTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTT
Found at i:55712614 original size:45 final size:43
Alignment explanation
Indices: 55712491--55713405 Score: 496
Period size: 45 Copynumber: 20.4 Consensus size: 43
55712481 GGTTTAGGAT
* *
55712491 TTAGGGTTTTTAA-TTAAATTAAGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAA---ATTTAGG
**
55712537 TTAGGGTTTTTAAGTTAA-GGGGTT-GGGATTTTTAAATTTAGGG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGG-TTTTTAAATTTA-GG
*
55712580 TTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGG
1 -TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAATTTA-GG
*
55712625 TTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTTAAGG
1 -TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAATTT-AGG
55712670 TTTAGGG-TTTTAA-TTAAATTAGGTTAGGGTTTTTTATTTAA-TTAGG
1 -TTAGGGTTTTTAAGTT-AATTAGGTTAGGG-TTTTTA---AATTTAGG
* * *
55712716 TTAAGGTTTTTAAG-T--TTAGGGTTTAGGATTTTTAATTAAATTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
* *
55712761 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAA---ATTTAGG
* *** *
55712807 TTAAGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAA---ATTTAGG
* *** *
55712853 TTAAGGTTTTTAAGTTAAGCGGGTTAGGGTTTTTAAGTTTAGAG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAATTTAG-G
* * * *
55712897 TTTAGGGTTTTTAATTTAATTAGTTTAGGGGTTTTAATTTAATTAGG
1 -TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAA---ATTTAGG
*
55712944 TTAGGGTTTTTAAG---ATTAGGGTTTAGGGTTTTTAATTAATTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAA--ATTTAGG
*
55712988 TTAGGGTTTTTAA-TTAAATTAGGTTAGGG-TTTT-AATTAATTGG
1 TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAATT--TAGG
* *
55713031 TTAGGGTTTTTAAG-T--TTAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
* *
55713076 TTAGGATTTTTAA-TTAAATTAGGTTAGGGTTTTGAGTTAA-TTAGG
1 TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTT---TAAATTTAGG
* * *
55713121 TTAAGGTTTTTAAG-T--TTAGGGTTTAGGGTTTTTAATTAAATTGGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
* *
55713166 TTAGGG-TTTTAAG-T--TTAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTT-A--AATTTAGG
* *
55713210 TTAGGGTTTCTAAG-T--TTAGGGTTTAAGGTTTTAATTAAA-TTAGG
1 TTAGGGTTTTTAAGTTAATTA-GG-TT-AGGGTTT--TTAAATTTAGG
* * *
55713254 TTAGAGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTCAGGG
1 TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAATTTA-GG
* * *
55713298 TTTAAGG-TTTTAA-TTAAATTAGGTTAGAGTTTTTAATTTAATTAGG
1 -TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAA---ATTTAGG
* * *
55713344 TTAGGGTTTTTAAGTTAATTAAGTTAGGGTTTTTAAGTTAAAAGGG
1 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAATT--TA-GG
55713390 TTAGGGTTTTTAAGTT
1 TTAGGGTTTTTAAGTT
55713406 TAGGGTTTAA
Statistics
Matches: 723, Mismatches: 68, Indels: 156
0.76 0.07 0.16
Matches are distributed among these distances:
40 3 0.00
41 5 0.01
42 16 0.02
43 41 0.06
44 191 0.26
45 229 0.32
46 200 0.28
47 24 0.03
48 13 0.02
49 1 0.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (43 bp):
TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAATTTAGG
Found at i:55713461 original size:23 final size:23
Alignment explanation
Indices: 55713394--55713461 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
55713384 AAAGGGTTAG
55713394 GGTTTTTAAGTTT-AGGGT-TTAA
1 GGTTTTTAA-TTTAAGGGTATTAA
**
55713416 GGTTTTTAA-TTAA-ATTAGGTTAA
1 GGTTTTTAATTTAAGGGTA--TTAA
55713439 GGTTTTTAATTTAAGGGTATTAA
1 GGTTTTTAATTTAAGGGTATTAA
55713462 TGGGTAGTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 9 0.25
23 17 0.47
24 4 0.11
25 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (23 bp):
GGTTTTTAATTTAAGGGTATTAA
Found at i:55713525 original size:25 final size:25
Alignment explanation
Indices: 55713495--55713542 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
55713485 TATCAAAAAT
55713495 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
55713520 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
55713543 TATTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:55714672 original size:7 final size:7
Alignment explanation
Indices: 55714660--55714684 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55714650 TTATATAAAT
55714660 AATACTA
1 AATACTA
55714667 AATACTA
1 AATACTA
55714674 AATACTA
1 AATACTA
55714681 AATA
1 AATA
55714685 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:55714869 original size:20 final size:20
Alignment explanation
Indices: 55714832--55714869 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
55714822 TTTATTTTTA
*
55714832 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
55714852 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
55714870 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:55715789 original size:12 final size:11
Alignment explanation
Indices: 55715764--55715805 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
55715754 ATTTTTACGG
*
55715764 TTTAAAAAAAT
1 TTTAAAAATAT
55715775 TTTAAAAATATT
1 TTTAAAAATA-T
*
55715787 TTTAAAATTAT
1 TTTAAAAATAT
55715798 TTTAAAAA
1 TTTAAAAA
55715806 AGGGAGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:55715845 original size:21 final size:22
Alignment explanation
Indices: 55715803--55715845 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
55715793 ATTATTTTAA
* *
55715803 AAAAGGGAGTTAAGAGGAATTT
1 AAAAGGAACTTAAGAGGAATTT
55715825 AAAAGGAACTTAAGA-GAATTT
1 AAAAGGAACTTAAGAGGAATTT
55715846 TTGAAGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.49, C:0.02, G:0.26, T:0.23
Consensus pattern (22 bp):
AAAAGGAACTTAAGAGGAATTT
Found at i:55720324 original size:23 final size:23
Alignment explanation
Indices: 55720298--55720416 Score: 148
Period size: 23 Copynumber: 5.2 Consensus size: 23
55720288 ATAAGTGCCA
*
55720298 CACTGATATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
55720321 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * *
55720344 CACTAAAATGTTGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
55720367 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
55720390 CATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
55720413 CACT
1 CACT
55720417 AATCAATAAC
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:55720385 original size:46 final size:46
Alignment explanation
Indices: 55720305--55720416 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
55720295 CCACACTGAT
*
55720305 ATGTAGCCGAAGTTACCACTGATACGTAGCCGTAGCTACCACTAAA
1 ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTAAA
* * * * *
55720351 ATGTTGCTGAAGCTACCACTGATATGTAGCCGTAGCTACCATTGAA
1 ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTAAA
55720397 ATGTAGCCGAAGCTACCACT
1 ATGTAGCCGAAGCTACCACT
55720417 AATCAATAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTAAA
Found at i:55720433 original size:69 final size:68
Alignment explanation
Indices: 55720298--55720433 Score: 148
Period size: 69 Copynumber: 2.0 Consensus size: 68
55720288 ATAAGTGCCA
* * * ** **
55720298 CACTGATATGTAGCCGAAGTTACCACTGATACGTAGCCGTAGCTACCACTAAAATGTTGCTGAAG
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTACCACTAAAA-GTAACACAAG
55720363 CTAC
65 CTAC
* * *
55720367 CACTGATATGTAGCCGTAGCTACCATTGAAATGTAGCCGAAGCTACCACTAATCAA-TAACACAA
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTACCACTAA--AAGTAACACAA
55720431 GCT
64 GCT
55720434 GTTAGGTATC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
69 53 0.96
71 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (68 bp):
CACTGATATGTAGCCGAAGCTACCACTGAAACGTAGCCGAAGCTACCACTAAAAGTAACACAAGC
TAC
Found at i:55722306 original size:11 final size:11
Alignment explanation
Indices: 55722292--55722329 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
55722282 ATTGTTTGAT
55722292 TTTTATAGAAA
1 TTTTATAGAAA
*
55722303 TTTTACAGAAA
1 TTTTATAGAAA
55722314 TTTTATAGAAA
1 TTTTATAGAAA
55722325 TTTTA
1 TTTTA
55722330 ATACAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (11 bp):
TTTTATAGAAA
Found at i:55725783 original size:18 final size:18
Alignment explanation
Indices: 55725760--55725807 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
55725750 AAAATTTGAG
* *
55725760 AAATGATGTTCATATTTT
1 AAATGATGTTCACATTTC
55725778 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
55725796 AAATGATGTTCA
1 AAATGATGTTCA
55725808 AATTGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:55726332 original size:72 final size:72
Alignment explanation
Indices: 55726232--55726403 Score: 260
Period size: 72 Copynumber: 2.4 Consensus size: 72
55726222 AACAACAATG
* * *
55726232 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTGTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
55726296 ATTTATGA
66 ATTTAT-A
* *
55726304 GT-AATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
55726368 ATTTATA
66 ATTTATA
*
55726375 CTAAAT-TAATTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTAT
55726404 ATATGATTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 25 0.28
72 65 0.72
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.53
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTATACTT
ATTTATA
Found at i:55741206 original size:30 final size:31
Alignment explanation
Indices: 55741167--55741226 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
55741157 GGAGGTGAGA
*
55741167 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
55741198 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
55741227 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:55741454 original size:9 final size:9
Alignment explanation
Indices: 55741440--55741485 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
55741430 TATAGTTTGA
55741440 TATTCGAAT
1 TATTCGAAT
*
55741449 TATTCGAGT
1 TATTCGAAT
55741458 TATTCGAAT
1 TATTCGAAT
*
55741467 TATTCGAGT
1 TATTCGAAT
55741476 TATTCGAAT
1 TATTCGAAT
55741485 T
1 T
55741486 CGAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:55741463 original size:18 final size:18
Alignment explanation
Indices: 55741440--55741485 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
55741430 TATAGTTTGA
55741440 TATTCGAATTATTCGAGT
1 TATTCGAATTATTCGAGT
55741458 TATTCGAATTATTCGAGT
1 TATTCGAATTATTCGAGT
55741476 TATTCGAATT
1 TATTCGAATT
55741486 CGAAAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (18 bp):
TATTCGAATTATTCGAGT
Found at i:55741555 original size:9 final size:9
Alignment explanation
Indices: 55741538--55741568 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
55741528 TCGAGTTGAT
55741538 TCGAATAAC
1 TCGAATAAC
*
55741547 TCGATTAAC
1 TCGAATAAC
55741556 TCGAATAAC
1 TCGAATAAC
55741565 TCGA
1 TCGA
55741569 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:55744983 original size:15 final size:15
Alignment explanation
Indices: 55744945--55744994 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
55744935 ATGTATGTAT
55744945 ATGATAATAAGAAG-A
1 ATGATAATAA-AAGAA
55744960 A-GA-AATAAAATGAA
1 ATGATAATAAAA-GAA
55744974 AT-ATAATAAAAGAA
1 ATGATAATAAAAGAA
55744988 ATGATAA
1 ATGATAA
55744995 GAAAGTGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 2 0.07
13 6 0.20
14 10 0.33
15 12 0.40
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (15 bp):
ATGATAATAAAAGAA
Found at i:55747246 original size:22 final size:22
Alignment explanation
Indices: 55747215--55747256 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
55747205 ATAAAATAAT
55747215 ATCTTATAAT-AGAATAAAAGG
1 ATCTTATAATAAGAATAAAAGG
*
55747236 ATCTATATAATAAGATTAAAA
1 ATCT-TATAATAAGAATAAAA
55747257 AAATAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
ATCTTATAATAAGAATAAAAGG
Found at i:55747297 original size:19 final size:17
Alignment explanation
Indices: 55747255--55747298 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
55747245 ATAAGATTAA
*
55747255 AAAAATAAAAGACTAAT
1 AAAAATAAAAGACCAAT
*
55747272 AATAATAATAATGACCAAT
1 AAAAATAA-AA-GACCAAT
55747291 AAAAATAA
1 AAAAATAA
55747299 CAATAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAGACCAAT
Found at i:55749265 original size:128 final size:128
Alignment explanation
Indices: 55748723--55749226 Score: 837
Period size: 128 Copynumber: 3.9 Consensus size: 128
55748713 GCAACGTCCC
* * * * *
55748723 GGAGATAGGATTTGTGGCTTAAATATGTTTCCCTACTCTTGAAGATAAGATTCACCGTCTCCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
* *
55748788 CTCCTCCGCTACTGCTTAGGGAGATAAGATCTGTGATTTCCAACCTATTCCACTGCTGACCAG
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
* * *
55748851 GGAGATAGGACTTGTGGCTTAAATCTGTTTCCTTACTCTTGAAGATAAGATTCGCCGTATTCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
* * * *
55748916 ATGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTTCTGACCAA
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
*
55748979 GGAGATAGGACTTGTGGCTTAAATCTACTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
* * *
55749044 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGTTGACCAG
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
55749107 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
1 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
*
55749172 CTCCTCCGCTACTGCTTTGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTG
66 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTG
55749227 TAACCAATGG
Statistics
Matches: 351, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 351 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (128 bp):
GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
Found at i:55751566 original size:6 final size:6
Alignment explanation
Indices: 55751548--55751607 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
55751538 CATTTTCATT
* ** * *
55751548 TTTTGA CTTTGA TTTTGA TTTTTCTT TTTTGC TTTTGC TTTTGA TTTTGA
1 TTTTGA TTTTGA TTTTGA -TTTT-GA TTTTGA TTTTGA TTTTGA TTTTGA
55751598 TTTTGA TTTT
1 TTTTGA TTTT
55751608 TCTTCCCCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
6 37 0.82
7 8 0.18
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:55751575 original size:26 final size:27
Alignment explanation
Indices: 55751540--55751595 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
55751530 CCTCTTTTCA
55751540 TTTTCATTTTTTGAC-TTTGATTTTGAT
1 TTTTCATTTTTTG-CTTTTGATTTTGAT
*
55751567 TTTTC-TTTTTTGCTTTTGCTTTTGAT
1 TTTTCATTTTTTGCTTTTGATTTTGAT
55751593 TTT
1 TTT
55751596 GATTTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 1 0.04
26 21 0.78
27 5 0.19
ACGTcount: A:0.09, C:0.09, G:0.11, T:0.71
Consensus pattern (27 bp):
TTTTCATTTTTTGCTTTTGATTTTGAT
Found at i:55751601 original size:26 final size:26
Alignment explanation
Indices: 55751533--55751601 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
55751523 TTTTCCCCCT
*
55751533 CTTTTCATTTTCATTTTTTGACTTTG
1 CTTTTGATTTTCATTTTTTGACTTTG
*
55751559 ATTTTGATTTTTC-TTTTTTG-CTTTTG
1 CTTTTGA-TTTTCATTTTTTGAC-TTTG
*
55751585 CTTTTGATTTTGATTTT
1 CTTTTGATTTTCATTTT
55751602 GATTTTTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 5 0.14
26 26 0.72
27 5 0.14
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.70
Consensus pattern (26 bp):
CTTTTGATTTTCATTTTTTGACTTTG
Found at i:55756158 original size:22 final size:22
Alignment explanation
Indices: 55756127--55756168 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
55756117 ATAAAATAAT
55756127 ATCTTATAAT-AGAATAAAAGG
1 ATCTTATAATAAGAATAAAAGG
*
55756148 ATCTATATAATAAGATTAAAA
1 ATCT-TATAATAAGAATAAAA
55756169 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
ATCTTATAATAAGAATAAAAGG
Found at i:55756210 original size:19 final size:17
Alignment explanation
Indices: 55756168--55756211 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
55756158 TAAGATTAAA
*
55756168 AAAAATAAAAGACTAAT
1 AAAAATAAAAGACCAAT
*
55756185 AATAATAATAATGACCAAT
1 AAAAATAA-AA-GACCAAT
55756204 AAAAATAA
1 AAAAATAA
55756212 CAATAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAGACCAAT
Found at i:55756906 original size:21 final size:22
Alignment explanation
Indices: 55756882--55756923 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
55756872 GAAAGAAGAG
*
55756882 CAATCGGAAAA-AAAAAGAACC
1 CAATCGAAAAAGAAAAAGAACC
55756903 CAATCGAAAAAGGAAAAAGAA
1 CAATCGAAAAA-GAAAAAGAA
55756924 AACCTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.64, C:0.14, G:0.17, T:0.05
Consensus pattern (22 bp):
CAATCGAAAAAGAAAAAGAACC
Found at i:55757821 original size:122 final size:127
Alignment explanation
Indices: 55757615--55758105 Score: 732
Period size: 122 Copynumber: 3.9 Consensus size: 127
55757605 GCAACGTCCC
* * * * *
55757615 GGAGATAGGATTTGTGGCTTAATATGTTTCCCTACTCTTGAAGATAAGATTCACCGTCTCCGATC
1 GGAGATAGGACTTGTGGCTTAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* *
55757680 TCCTCCGCTACTGC-TAGGGAGATAAGATCTGTGATTTCCAACCTATTCCACTGCTGACCAG
66 TCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
* * * *
55757741 GGAGATAGGACTTGTGGCTTAAT-TGTTTCCTTACTCTTG-A-AT-AGATTCGCCGTATTCGATA
1 GGAGATAGGACTTGTGGCTTAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* * *
55757802 TGCTCCGCTACT-CTTAGGGAGACAAGATCTGTAATTTCC-ACCTATTCCACTTCTGA-CAA
66 TCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
*
55757861 GGAGATAGGACTTGTGGCTTAATCTACTTCCCTACTCTTGAAG-T-AGATTCGCCGTCTTCGATC
1 GGAGATAGGACTTGTGGCTTAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
* * *
55757924 TGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGTTGACCAG
66 TCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
55757986 GGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
1 GGAGATAGGACTTGTGGCTT-AATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGAT
*
55758051 CTCCTCCGCTACTGCTTTGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTG
65 CTCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTG
55758106 TAACCAATGG
Statistics
Matches: 331, Mismatches: 24, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
120 25 0.08
121 30 0.09
122 79 0.24
123 29 0.09
124 16 0.05
125 37 0.11
126 44 0.13
127 1 0.00
128 70 0.21
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (127 bp):
GGAGATAGGACTTGTGGCTTAATCTGCTTCCCTACTCTTGAAGATAAGATTCGCCGTCTTCGATC
TCCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAG
Found at i:55760441 original size:6 final size:6
Alignment explanation
Indices: 55760423--55760481 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
55760413 CATTTTCATT
* ** * *
55760423 TTTTGA CTTTGA TTTTGA TTTTTCT TTTTGC TTTTGC TTTTGA TTTTGA
1 TTTTGA TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
55760472 TTTTGA TTTT
1 TTTTGA TTTT
55760482 TCTTCCCCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 41 0.91
7 4 0.09
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (6 bp):
TTTTGA
Found at i:55760458 original size:25 final size:25
Alignment explanation
Indices: 55760422--55760469 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
55760412 TCATTTTCAT
55760422 TTTTTGACTTTGATTTTGATTTTTC
1 TTTTTGACTTTGATTTTGATTTTTC
*
55760447 TTTTTG-CTTTTGCTTTTGATTTT
1 TTTTTGAC-TTTGATTTTGATTTT
55760470 GATTTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.08, C:0.08, G:0.12, T:0.71
Consensus pattern (25 bp):
TTTTTGACTTTGATTTTGATTTTTC
Found at i:55760475 original size:25 final size:25
Alignment explanation
Indices: 55760422--55760475 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
55760412 TCATTTTCAT
**
55760422 TTTTTGACTTTGATTTTGATTTTTC
1 TTTTTGACTTTGATTTTGATTTTGA
*
55760447 TTTTTG-CTTTTGCTTTTGATTTTGA
1 TTTTTGAC-TTTGATTTTGATTTTGA
55760472 TTTT
1 TTTT
55760476 GATTTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.09, C:0.07, G:0.13, T:0.70
Consensus pattern (25 bp):
TTTTTGACTTTGATTTTGATTTTGA
Found at i:55760494 original size:37 final size:37
Alignment explanation
Indices: 55760423--55760494 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
55760413 CATTTTCATT
****
55760423 TTTTGACTTTGATTTTGATTTTTCTTTTTGCTTTTGC
1 TTTTGACTTTGATTTTGATTTTTCTTCCCCCTTTTGC
*
55760460 TTTTGATTTTGATTTTGATTTTTCTTCCCCCTTTT
1 TTTTGACTTTGATTTTGATTTTTCTTCCCCCTTTT
55760495 TTTTTGAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.08, C:0.14, G:0.11, T:0.67
Consensus pattern (37 bp):
TTTTGACTTTGATTTTGATTTTTCTTCCCCCTTTTGC
Found at i:55765091 original size:22 final size:22
Alignment explanation
Indices: 55765060--55765101 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
55765050 ATAAAATAAT
55765060 ATCTTATAAT-AGAATAAAAGG
1 ATCTTATAATAAGAATAAAAGG
*
55765081 ATCTATATAATAAGATTAAAA
1 ATCT-TATAATAAGAATAAAA
55765102 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
ATCTTATAATAAGAATAAAAGG
Found at i:55767398 original size:55 final size:55
Alignment explanation
Indices: 55767338--55767442 Score: 210
Period size: 55 Copynumber: 1.9 Consensus size: 55
55767328 TTTGCCTCTG
55767338 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
1 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
55767393 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACT
1 GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACT
55767443 TAATGTTGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (55 bp):
GAGTGACCCAAACTTAATGAGAAAAAAATTCTTCTCTAAGGTCGTGAACTGACAA
Found at i:55770040 original size:12 final size:13
Alignment explanation
Indices: 55770008--55770037 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
55769998 TGTCATGTTT
55770008 ATATTAATTTTTC
1 ATATTAATTTTTC
55770021 ATATTAATTTTTC
1 ATATTAATTTTTC
55770034 ATAT
1 ATAT
55770038 AATGTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTAATTTTTC
Found at i:55773810 original size:29 final size:30
Alignment explanation
Indices: 55773751--55773808 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
55773741 TCCGAGCCTT
*
55773751 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
55773781 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
55773809 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:55774039 original size:13 final size:13
Alignment explanation
Indices: 55774021--55774051 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55774011 TTCCAGCAAC
55774021 TATGAATTTATTT
1 TATGAATTTATTT
55774034 TATGAATTTATTT
1 TATGAATTTATTT
*
55774047 GATGA
1 TATGA
55774052 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:55774257 original size:50 final size:50
Alignment explanation
Indices: 55774146--55774394 Score: 309
Period size: 50 Copynumber: 4.8 Consensus size: 50
55774136 ATTTGGGTAA
*
55774146 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GA-CATG
* * * *
55774202 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTAGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* *
55774252 AGAGGTCCCATGTAAGACCATGTCTGGGTCATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* * * *
55774302 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
** *
55774352 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
55774395 TGTTATTATC
Statistics
Matches: 171, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 95 0.56
51 36 0.21
55 2 0.01
56 38 0.22
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
Found at i:55782981 original size:21 final size:21
Alignment explanation
Indices: 55782899--55782981 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
55782889 CATCGTTCAT
*
55782899 AGAAGCTCGT-A-AGCTGAAT
1 AGAAGCTCGTAAGAGCTGAAC
* * *
55782918 AGAAACTCTTAAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
55782939 AGAAGCTCATAAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
55782960 AGAAGCTCGTAAGAGCTCAAC
1 AGAAGCTCGTAAGAGCTGAAC
55782981 A
1 A
55782982 AAAAGTAGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 8 0.15
20 1 0.02
21 44 0.83
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:55791281 original size:36 final size:38
Alignment explanation
Indices: 55791232--55791321 Score: 112
Period size: 36 Copynumber: 2.4 Consensus size: 38
55791222 ACCCACTACC
* **
55791232 GTGGTGTGTAGGGTGGATGGG-CTACCATATC-CCTTT
1 GTGGTGTGTAGGGTGGATGGGCCTACCATAGCTCAATT
* * *
55791268 GTGGTGTGCAGGGTGAATGGGCCTACCGTAGCTCAATT
1 GTGGTGTGTAGGGTGGATGGGCCTACCATAGCTCAATT
55791306 GTGGTGTGTAGGGTGG
1 GTGGTGTGTAGGGTGG
55791322 TCGGAGTGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 19 0.43
37 8 0.18
38 17 0.39
ACGTcount: A:0.14, C:0.14, G:0.41, T:0.30
Consensus pattern (38 bp):
GTGGTGTGTAGGGTGGATGGGCCTACCATAGCTCAATT
Found at i:55794234 original size:16 final size:16
Alignment explanation
Indices: 55794179--55794233 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
55794169 GAACTATTAT
55794179 ATTTTCCATCTTTCTA
1 ATTTTCCATCTTTCTA
* *
55794195 TTTTTTCCATCGCTTC-A
1 -ATTTTCCATC-TTTCTA
*
55794212 ATTTTCTATCTTTCTA
1 ATTTTCCATCTTTCTA
55794228 ATTTTC
1 ATTTTC
55794234 TTTCTACTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.10
16 15 0.48
17 10 0.32
18 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTTTCCATCTTTCTA
Found at i:55794309 original size:13 final size:13
Alignment explanation
Indices: 55794293--55794323 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55794283 TATTTTAATT
55794293 ATTTATCATTTAA
1 ATTTATCATTTAA
*
55794306 ATTTATTATTTAA
1 ATTTATCATTTAA
55794319 ATTTA
1 ATTTA
55794324 ATTTTAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTATCATTTAA
Found at i:55795796 original size:48 final size:48
Alignment explanation
Indices: 55795724--55795819 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
55795714 TTTCTTTGCT
* * ** *
55795724 TAAAAATGCCTAAGTCAGCCTAACTTGCAGTGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
*
55795772 TAAAAACGCCTAAGTCAGCTTAACTCGCAACGATAAAGAATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
55795820 AATTGCCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
Found at i:55803349 original size:3 final size:3
Alignment explanation
Indices: 55803335--55803382 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
55803325 TTTATTTACG
* *
55803335 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTCA TGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
55803381 TT
1 TT
55803383 GCTTCTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:55806652 original size:11 final size:11
Alignment explanation
Indices: 55806636--55806682 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 11
55806626 GAGTTCAGAC
55806636 TCAAAAAAAAA
1 TCAAAAAAAAA
55806647 TC--AAAAAAA
1 TCAAAAAAAAA
55806656 T-AAAAAAAAA
1 TCAAAAAAAAA
*
55806666 ACAAAAAAAAAA
1 TC-AAAAAAAAA
55806678 TCAAA
1 TCAAA
55806683 GTCAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
9 8 0.27
10 7 0.23
11 5 0.17
12 10 0.33
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (11 bp):
TCAAAAAAAAA
Found at i:55806675 original size:20 final size:19
Alignment explanation
Indices: 55806638--55806674 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
55806628 GTTCAGACTC
*
55806638 AAAAAAAAATCAAAAAAAT
1 AAAAAAAAAACAAAAAAAT
55806657 AAAAAAAAAACAAAAAAA
1 AAAAAAAAAACAAAAAAA
55806675 AAATCAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.89, C:0.05, G:0.00, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAAT
Found at i:55810026 original size:95 final size:95
Alignment explanation
Indices: 55808944--55810018 Score: 1630
Period size: 95 Copynumber: 11.3 Consensus size: 95
55808934 GCAGTTAAAA
* * *
55808944 AGATTGAAGCTACAACAGCGTATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCT---A--GCAGTTAAAAAGATTGAAGCTACAA
*
55809009 CAGCGGATCTTACTTTCTTAGCATTGCAGTGGAAC
61 CAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* *** **
55809044 AGATTGAAGCTACAGCAGAAAATCTTGCTTCCCCGGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
**
55809109 GATCTTACTTTCCTAGTGTTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
55809139 AAATTGAAGCTAAAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
* **
55809204 GATCTTATTTTCCTAGTGTTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * *
55809234 GGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAACAACG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
55809299 GATCTTACTTTCCTAGCATGGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
55809329 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
55809394 GATCTTACTTTCTTAGCATTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* **
55809424 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCCGGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
**
55809489 GATCTTACTTTCCTAGTGTTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
55809519 AGATTGAAGCTACAACAGCAGATCTTGCTTCCCCAGCAATTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
**
55809584 GATCTTACTTTCCTAGTGTTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* *
55809614 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCAGCAGTTAAAAAGATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
* *
55809679 GATCTTATTTTCCTAGTGA-TGCAGTGGAAC
66 GATCTTACTTTCCTAG-CATTGCAGTGGAAC
* *
55809709 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
55809774 GATCTTACTTTCTTAGCATTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
55809804 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAATAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
55809869 GATCTTACTTTCCTAGCATTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
*
55809899 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
55809964 AATCTTACTTTCCTAGCATTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* *
55809994 AGATTGAAGCTACAACGGCGAATCT
1 AGATTGAAGCTACAACAGCGGATCT
55810019 CACTTCCCCG
Statistics
Matches: 908, Mismatches: 65, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
94 1 0.00
95 879 0.97
100 28 0.03
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (95 bp):
AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTAGCAGTTAAAAAGATTGAAGCTACAACAGCG
GATCTTACTTTCCTAGCATTGCAGTGGAAC
Found at i:55810123 original size:49 final size:48
Alignment explanation
Indices: 55809983--55810224 Score: 136
Period size: 50 Copynumber: 4.9 Consensus size: 48
55809973 TTCCTAGCAT
* * * * *
55809983 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCC-CGATA
1 TGCAGAGGAACATATTAAAGCTACGACGGCGAATCTCATTTCCCACG--A
* * * * *
55810032 TTGCA-AGTTAAAAGATTAAAG-TCACAACGGCGAATCTTATTTCCCAACGA
1 -TGCAGAG-GAACATATTAAAGCT-ACGACGGCGAATCTCATTTCCC-ACGA
* *
55810082 TGCAGAGGAACATATTTAAGCTACGACGGTGAATCTCATTTCCC-CGATA
1 TGCAGAGGAACATATTAAAGCTACGACGGCGAATCTCATTTCCCACG--A
* * * * * *
55810131 TTGCA-AGTTAAAAGATTAAAG-TCACAACAGCGAATCTTATTTCCCAGCGA
1 -TGCAGAG-GAACATATTAAAGCT-ACGACGGCGAATCTCATTTCCCA-CGA
* * * *
55810181 TACAGAGGAACATATTGAAGCTACGACGGTGAATCTCACTTCCC
1 TGCAGAGGAACATATTAAAGCTACGACGGCGAATCTCATTTCCC
55810225 CGACATAGCA
Statistics
Matches: 146, Mismatches: 31, Indels: 31
0.70 0.15 0.15
Matches are distributed among these distances:
47 2 0.01
49 67 0.46
50 73 0.50
52 4 0.03
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (48 bp):
TGCAGAGGAACATATTAAAGCTACGACGGCGAATCTCATTTCCCACGA
Found at i:55810143 original size:99 final size:100
Alignment explanation
Indices: 55809461--55810317 Score: 487
Period size: 95 Copynumber: 8.8 Consensus size: 100
55809451 CTTCCCCGGC
* * * * * *
55809461 AGTTAAAAAGATTGAAG-CTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTG
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGATGCAGAGGAACAGATTG
* * * **
55809525 AAGCTACAACAG-CAGATCTTGCTTCCCC---A--GCA
64 AAGCTACGACGGTGA-ATCTCACTTCCCCGATATTGCA
* * * * * *
55809557 A-TTAAAAAGATTGAAG-CTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTG
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGATGCAGAGGAACAGATTG
* * * * **
55809620 AAGCTACAACAGCGGATCTTGCTTCCCC---A--GC-
64 AAGCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* * * * * *
55809651 AGTTAAAAAGATTGAAG-CTACAATAGCGGATCTTATTTTCCTAGTGATGCAGTGGAACAGATTG
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGATGCAGAGGAACAGATTG
* * * ** *
55809715 AAGCTAC-AGCAGCGGATCTTGCTT-CCC----TGGC-
64 AAGCTACGA-CGGTGAATCTCACTTCCCCGATATTGCA
* * ** *
55809746 AGTTAAAAAGATTGAAG-CTACAACAGCGGATCTTACTTTCTTAGC-ATTGCAGTGGAACAGATT
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGA-TGCAGAGGAACAGATT
* * * ** *
55809809 GAAGCTAC-AGCAGCGGATCTTGCTT-CCC----TGGC-
63 GAAGCTACGA-CGGTGAATCTCACTTCCCCGATATTGCA
* * * * *
55809841 AGTTAAAAAGATTGAAG-CTACAATAGCGGATCTTACTTTCCTAGC-ATTGCAGTGGAACAGATT
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGA-TGCAGAGGAACAGATT
* * * **
55809904 GAAGCTAC-AGCAGCGGATCTTGCTT-CCC--TA--GC-
63 GAAGCTACGA-CGGTGAATCTCACTTCCCCGATATTGCA
* * *
55809936 AGTTAAAAAGATTGAAG-CTACAACAGCGAATCTTACTTTCCTAGC-ATTGCAGTGGAACAGATT
1 AGTTAAAAAGATTAAAGTC-ACAACAGCGAATCTTA-TTTCCCAGCGA-TGCAGAGGAACAGATT
* *
55809999 GAAGCTACAACGGCGAATCTCACTTCCCCGATATTGCA
63 GAAGCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* * * *
55810037 AGTT-AAAAGATTAAAGTCACAACGGCGAATCTTATTTCCCAACGATGCAGAGGAACATATTTAA
1 AGTTAAAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATGCAGAGGAACAGATTGAA
*
55810101 GCTACGACGGTGAATCTCATTTCCCCGATATTGCA
66 GCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* *
55810136 AGTT-AAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATACAGAGGAACATATTGAA
1 AGTTAAAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATGCAGAGGAACAGATTGAA
* *
55810200 GCTACGACGGTGAATCTCACTTCCCCGACATAGCA
66 GCTACGACGGTGAATCTCACTTCCCCGATATTGCA
* * * *
55810235 A-TTAAAATAGATTGAAGTCACGAA-GGCGAATCTTACTTCTCAGGCGATGCAGTA-GAACAGAT
1 AGTTAAAA-AGATTAAAGTCAC-AACAGCGAATCTTATTTCCCA-GCGATGCAG-AGGAACAGAT
**
55810297 TGAAGCTACGGTGGTGAATCT
62 TGAAGCTACGACGGTGAATCT
55810318 AATTTCTCTA
Statistics
Matches: 697, Mismatches: 42, Indels: 39
0.90 0.05 0.05
Matches are distributed among these distances:
94 6 0.01
95 433 0.62
96 5 0.01
98 4 0.01
99 151 0.22
100 56 0.08
101 41 0.06
102 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (100 bp):
AGTTAAAAAGATTAAAGTCACAACAGCGAATCTTATTTCCCAGCGATGCAGAGGAACAGATTGAA
GCTACGACGGTGAATCTCACTTCCCCGATATTGCA
Found at i:55810496 original size:44 final size:42
Alignment explanation
Indices: 55810342--55810648 Score: 223
Period size: 44 Copynumber: 7.1 Consensus size: 42
55810332 CACAGTTAAA
*
55810342 CAGATTGAAAATCGCAGATCTTATCTCTTTGAAGTTGCAGTAGAG
1 CAGATT-AAAAT--CAGATCTTATCTCTCTGAAGTTGCAGTAGAG
*** * *
55810387 CAGA-TCGTATCCAG-TCTTATCTCCCTGAAGTTGTAGTGGAGTAG
1 CAGATTAAAAT-CAGATCTTATCTCTCTGAAGTTGCAGT--AG-AG
** * * *
55810431 ACAGA-GGAAACCA-ATCCTATCTCTCTAAAGTTGCAGTAGAG
1 -CAGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* *
55810472 CGGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAATAGAG
1 CAGATTAAAATC--AGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * * *
55810516 CAGA-TCACATCAG-TCTTATCTCCCTGAAGTTGCAGTGGAG
1 CAGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * * *
55810556 CAGATAGAAGAAGTCA-ATCCTATCTCCCTGAAGTTGCAGTGGAG
1 CAGAT-TAA-AA-TCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* *
55810600 CTGATTAAAACCGCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
1 CAGATTAAAA--TCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
55810644 CAGAT
1 CAGAT
55810649 CGCATCAGAT
Statistics
Matches: 205, Mismatches: 41, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
40 31 0.15
41 28 0.14
42 8 0.04
43 15 0.07
44 114 0.56
45 9 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
CAGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
Found at i:55810575 original size:128 final size:128
Alignment explanation
Indices: 55810356--55810656 Score: 440
Period size: 128 Copynumber: 2.3 Consensus size: 128
55810346 TTGAAAATCG
* * *
55810356 CAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGT
1 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT-CAGTCTTATCTCCCTGAAGTTGC
* * * *
55810421 AGTGGAGTAGACAGAGGAAACCAATCCTATCTCTCTAAAGTTGCAGTAGAGCGGATTAAAATCA
65 AGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCA
* * *
55810485 TAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCAGTCTTATCTCCCTGAAGTTGCA
1 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGTCTTATCTCCCTGAAGTTGCA
* ** * * * *
55810550 GTGGAGCAGATAGAAGAAGTCAATCCTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAACCG
66 GTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCA
55810613 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAG
1 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAG
55810657 ATTTTATTTT
Statistics
Matches: 152, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
128 116 0.76
129 36 0.24
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (128 bp):
CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCA
Found at i:55812585 original size:3 final size:3
Alignment explanation
Indices: 55812571--55812624 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
55812561 TTTATTTACG
*
55812571 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
*
55812617 TGA TTA TT
1 TTA TTA TT
55812625 GCTTCTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 44 0.96
4 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:55817968 original size:25 final size:24
Alignment explanation
Indices: 55817915--55817966 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
55817905 AATTTAATGG
* *
55817915 TAAAGTAATTAATTTAATATTTTT
1 TAAAGTAAATAAATTAATATTTTT
55817939 TAAAGTAAATAAATTAATATTTTT
1 TAAAGTAAATAAATTAATATTTTT
55817963 TAAA
1 TAAA
55817967 AGGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TAAAGTAAATAAATTAATATTTTT
Found at i:55818148 original size:13 final size:13
Alignment explanation
Indices: 55818132--55818195 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
55818122 TTTTCTTTAT
*
55818132 TGCTTTTGAGAAA
1 TGCTTTTGAGAAG
55818145 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
55818158 TGTTTTTCAGAAG
1 TGCTTTTGAGAAG
55818171 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
55818184 TGCTTTTGAGAA
1 TGCTTTTGAGAA
55818196 ATTTGAGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Done.