Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 18 of 349
Found at i:5134088 original size:35 final size:34
Alignment explanation
Indices: 5134049--5134116 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
5134039 TTATTTTTAT
** *
5134049 ATATTACTTATTATTTTATATATATTATATATCAC
1 ATATTACCAATTATATTATATATATT-TATATCAC
* *
5134084 ATATTACCAATTATATTATTTATGTTTATATCA
1 ATATTACCAATTATATTATATATATTTATATCA
5134117 TATGTATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 7 0.25
35 21 0.75
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (34 bp):
ATATTACCAATTATATTATATATATTTATATCAC
Found at i:5134227 original size:19 final size:19
Alignment explanation
Indices: 5134170--5134227 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
5134160 TTTAAACTCA
*
5134170 TATTATATATACATTTCA-T
1 TATTATATAT-TATTTCATT
*
5134189 TATTATTTATTTATTT-ATT
1 TATTATATA-TTATTTCATT
5134208 TATTATATATTATTTCATT
1 TATTATATATTATTTCATT
5134227 T
1 T
5134228 TAAATTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.21
19 25 0.76
20 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTATATATTATTTCATT
Found at i:5140814 original size:12 final size:12
Alignment explanation
Indices: 5140799--5140826 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5140789 GCCGTTTGTG
5140799 TGTTCGATATAA
1 TGTTCGATATAA
5140811 TGTTCGATATAA
1 TGTTCGATATAA
5140823 TGTT
1 TGTT
5140827 TTCTGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (12 bp):
TGTTCGATATAA
Found at i:5142251 original size:13 final size:13
Alignment explanation
Indices: 5142233--5142260 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5142223 CTTGTACAAG
5142233 TAAACTTCATAAA
1 TAAACTTCATAAA
5142246 TAAACTTCATAAA
1 TAAACTTCATAAA
5142259 TA
1 TA
5142261 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:5142746 original size:35 final size:35
Alignment explanation
Indices: 5142680--5142746 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
5142670 CAAACACCAG
* * *
5142680 AAAATATTTTTCAGTAAATTATTTTACAAAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
*
5142715 AAAACATTTTCCAG-AAATCATTTTACGAAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAA
5142747 CATTTTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
Found at i:5143757 original size:18 final size:18
Alignment explanation
Indices: 5143729--5143763 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5143719 TAGTGGGGGG
5143729 TTTTGATTTTATCTTTTTA
1 TTTTGATTTTAT-TTTTTA
5143748 TTTT-ATTTTATTTTTT
1 TTTTGATTTTATTTTTT
5143764 CTTGTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTGATTTTATTTTTTA
Found at i:5149351 original size:31 final size:30
Alignment explanation
Indices: 5149292--5149351 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
5149282 ACTATTTCTT
* *
5149292 AATTTAGTACATAAGTTTTTTTTTAAATTC
1 AATTTAGTACATAAATTTTTTTTCAAATTC
* *
5149322 AATTTGGTACTTAAATTTTTTTGTCAAATT
1 AATTTAGTACATAAATTTTTTT-TCAAATT
5149352 TGATACCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (30 bp):
AATTTAGTACATAAATTTTTTTTCAAATTC
Found at i:5152426 original size:55 final size:53
Alignment explanation
Indices: 5152344--5152473 Score: 138
Period size: 56 Copynumber: 2.4 Consensus size: 53
5152334 AAAATTGGAC
* * *
5152344 AAAAAACTTAGGTATCAAATT-AAAAAAAATGACAAGTTCA-ACTGTCAAATTAA
1 AAAAAACTTAAGTACCAAATTAAAAAAAAATG-CAAGTTCAGA-TATCAAATTAA
* *
5152397 AAAAAAATTAAGTACCAAATTAGAGAAAAAAATGCAAGTTCAGATATTAAATTAA
1 AAAAAACTTAAGTACCAAATTA-A-AAAAAAATGCAAGTTCAGATATCAAATTAA
* *
5152452 ACCAAAACTTAAATACCAAATT
1 A-AAAAACTTAAGTACCAAATT
5152474 TTGTAAAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
53 18 0.28
55 19 0.30
56 27 0.42
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (53 bp):
AAAAAACTTAAGTACCAAATTAAAAAAAAATGCAAGTTCAGATATCAAATTAA
Found at i:5152435 original size:26 final size:23
Alignment explanation
Indices: 5152389--5152435 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
5152379 GTTCAACTGT
*
5152389 CAAATTAAAAAAAAATTAAGTAC
1 CAAATTAAAAAAAAATCAAGTAC
5152412 CAAATTAGAGAAAAAAATGCAAGT
1 CAAATTA-A-AAAAAAAT-CAAGT
5152436 TCAGATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 1 0.05
25 8 0.40
26 4 0.20
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.19
Consensus pattern (23 bp):
CAAATTAAAAAAAAATCAAGTAC
Found at i:5152482 original size:56 final size:56
Alignment explanation
Indices: 5152366--5152473 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
5152356 TATCAAATTA
* *
5152366 AAAAAAATGACAAGTTCAACTGTCAAATTAAAAAAAAATTAAGTACCAAATTAGAG
1 AAAAAAATGACAAGTTCAACTATCAAATTAAAAAAAAATTAAATACCAAATTAGAG
* * *
5152422 AAAAAAATG-CAAGTTCAGA-TATTAAATTAAACCAAAACTTAAATACCAAATT
1 AAAAAAATGACAAGTTCA-ACTATCAAATTAAA-AAAAAATTAAATACCAAATT
5152474 TTGTAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
55 18 0.40
56 27 0.60
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.23
Consensus pattern (56 bp):
AAAAAAATGACAAGTTCAACTATCAAATTAAAAAAAAATTAAATACCAAATTAGAG
Found at i:5154612 original size:17 final size:17
Alignment explanation
Indices: 5154588--5154645 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
5154578 CAAAATTTTA
5154588 AATA-ATTAAATAAATT
1 AATATATTAAATAAATT
* *
5154604 AATATATT-ATTATAGTT
1 AATATATTAAATA-AATT
*
5154621 AA-ATTATTAAAGAAATT
1 AATA-TATTAAATAAATT
5154638 AATATATT
1 AATATATT
5154646 TTAATTATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 9
0.70 0.11 0.20
Matches are distributed among these distances:
16 8 0.25
17 21 0.66
18 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AATATATTAAATAAATT
Found at i:5166048 original size:19 final size:19
Alignment explanation
Indices: 5166021--5166059 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
5166011 ACACAAAATT
5166021 TCACCTCTTTATTGTTTCG
1 TCACCTCTTTATTGTTTCG
*
5166040 TCACTTCTTTATTGTTTCG
1 TCACCTCTTTATTGTTTCG
5166059 T
1 T
5166060 TTGCGTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.23, G:0.10, T:0.56
Consensus pattern (19 bp):
TCACCTCTTTATTGTTTCG
Found at i:5167566 original size:13 final size:14
Alignment explanation
Indices: 5167541--5167573 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
5167531 TTATTTCATT
5167541 AAAAATAATTTTTA
1 AAAAATAATTTTTA
*
5167555 TAAAAT-ATTTTTA
1 AAAAATAATTTTTA
5167568 AAAAAT
1 AAAAAT
5167574 CTATCAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:5169575 original size:32 final size:33
Alignment explanation
Indices: 5169462--5169582 Score: 140
Period size: 35 Copynumber: 3.7 Consensus size: 33
5169452 AGGTTAAAAT
* * *
5169462 ATAATGATA-TTTAAAAT-ATTTCACATATAAAA
1 ATAATGATATTTTGAAATAATTT-ACACATAATA
* *
5169494 AGAATGATATTTTGAAATATTTTACACATAATA
1 ATAATGATATTTTGAAATAATTTACACATAATA
5169527 ATAATATGATATTTTGAAATAATTTACACATAATA
1 AT-A-ATGATATTTTGAAATAATTTACACATAATA
*
5169562 ATAATGGTA-TTTGAAATAATT
1 ATAATGATATTTTGAAATAATT
5169583 GAAATATTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
32 20 0.26
33 21 0.27
34 5 0.06
35 31 0.40
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (33 bp):
ATAATGATATTTTGAAATAATTTACACATAATA
Found at i:5169733 original size:28 final size:30
Alignment explanation
Indices: 5169684--5169745 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
5169674 ATATTTTAAC
*
5169684 ATAATTATATATATAATATATTTTTGT-TAT
1 ATAATTACATATATAATATA-TTTTGTCTAT
*
5169714 ATAATTACATAT-TTAT-TATTTTGTCTAT
1 ATAATTACATATATAATATATTTTGTCTAT
5169742 ATAA
1 ATAA
5169746 ATAAAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.21
28 9 0.31
29 3 0.10
30 11 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (30 bp):
ATAATTACATATATAATATATTTTGTCTAT
Found at i:5170942 original size:18 final size:20
Alignment explanation
Indices: 5170919--5170956 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
5170909 GTCCCAGATC
5170919 TATTTTTTT-AAAA-AAATT
1 TATTTTTTTCAAAACAAATT
5170937 TATTTTTTTCAAAACAAATT
1 TATTTTTTTCAAAACAAATT
5170957 AATTGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTTTTTCAAAACAAATT
Found at i:5172068 original size:29 final size:30
Alignment explanation
Indices: 5172016--5172093 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
5172006 GAATTGAATC
* * *
5172016 AAATCAAAATTTCGTTTATAAAATTACACA-
1 AAATCAAAATTT-ATGTACAAAATTACACAT
5172046 AAATCAAAATTTATGTACAAAATTACACATT
1 AAATCAAAATTTATGTACAAAATTACACA-T
* *
5172077 AAACCATAATTTATGTA
1 AAATCAAAATTTATGTA
5172094 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 14 0.34
30 12 0.29
31 15 0.37
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTATGTACAAAATTACACAT
Found at i:5173790 original size:15 final size:16
Alignment explanation
Indices: 5173757--5173792 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
5173747 ATGTTATTTC
5173757 AAAATTAAAACAATGA
1 AAAATTAAAACAATGA
5173773 AAAATTAAAACAAT-A
1 AAAATTAAAACAATGA
5173788 AAAAT
1 AAAAT
5173793 ATTATCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATTAAAACAATGA
Found at i:5174620 original size:51 final size:51
Alignment explanation
Indices: 5174557--5174658 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
5174547 ATTAATAATG
* *
5174557 TTAACAGCATAATAATTAACTAATTAAAATTAAATAATTTAATAATATTTT
1 TTAACAACATAATAATTAACTAATTAAAATTAAATAATTAAATAATATTTT
5174608 TTAACAACATAATAATTAACTAATTAAAATTAAATAATTAAATAATATTTT
1 TTAACAACATAATAATTAACTAATTAAAATTAAATAATTAAATAATATTTT
5174659 GTTACCATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (51 bp):
TTAACAACATAATAATTAACTAATTAAAATTAAATAATTAAATAATATTTT
Found at i:5174806 original size:28 final size:27
Alignment explanation
Indices: 5174776--5174855 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 27
5174766 AAAGAACTAA
* *
5174776 AAAAAATTAGAATTGAGAATTTAGAAT
1 AAAAAATTAGAATTGAAAATTGAGAAT
5174803 AAAAAATTGAGAATT-AACAATTGAGAAT
1 AAAAAATT-AGAATTGAA-AATTGAGAAT
* *
5174831 CAAAAAGTAAGAATTGAAAATTGAG
1 -AAAAAATTAGAATTGAAAATTGAG
5174856 TTGAAAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
27 9 0.20
28 28 0.62
29 8 0.18
ACGTcount: A:0.56, C:0.03, G:0.16, T:0.25
Consensus pattern (27 bp):
AAAAAATTAGAATTGAAAATTGAGAAT
Found at i:5174810 original size:14 final size:14
Alignment explanation
Indices: 5174793--5174855 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 14
5174783 TAGAATTGAG
*
5174793 AATTTAGAATAAAA
1 AATTGAGAATAAAA
* *
5174807 AATTGAGAATTAAC
1 AATTGAGAATAAAA
*
5174821 AATTGAGAATCAAA
1 AATTGAGAATAAAA
* * **
5174835 AAGTAAGAATTGAA
1 AATTGAGAATAAAA
5174849 AATTGAG
1 AATTGAG
5174856 TTGAAAAGAA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.56, C:0.03, G:0.16, T:0.25
Consensus pattern (14 bp):
AATTGAGAATAAAA
Found at i:5178762 original size:19 final size:19
Alignment explanation
Indices: 5178725--5178762 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
5178715 AATAAATATA
*
5178725 TAATTAAAAACTAATTTTT
1 TAATTAAAAAATAATTTTT
5178744 TAATTAAAAAATAGATTTT
1 TAATTAAAAAATA-ATTTT
5178763 AGTAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
TAATTAAAAAATAATTTTT
Found at i:5178768 original size:21 final size:19
Alignment explanation
Indices: 5178725--5178769 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
5178715 AATAAATATA
* *
5178725 TAATTAAAAACTAATTTTT
1 TAATTAAAAAATAATTTTG
5178744 TAATTAAAAAATAGATTTTAG
1 TAATTAAAAAATA-ATTTT-G
5178765 TAATT
1 TAATT
5178770 TTGGAGTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 5 0.23
21 5 0.23
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (19 bp):
TAATTAAAAAATAATTTTG
Found at i:5185728 original size:26 final size:24
Alignment explanation
Indices: 5185684--5185733 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
5185674 ATTTGTTTTA
*
5185684 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
5185708 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
5185734 TTTTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:5186294 original size:15 final size:16
Alignment explanation
Indices: 5186278--5186323 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
5186268 AAATTTTAAT
5186278 AAATAAAAAATATATA
1 AAATAAAAAATATATA
**
5186294 AAATTATTAAATAT-TA
1 AAA-TAAAAAATATATA
5186310 AAATAAAAAATATA
1 AAATAAAAAATATA
5186324 AATACATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 8 0.33
16 8 0.33
17 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAAAAAATATATA
Found at i:5186311 original size:27 final size:29
Alignment explanation
Indices: 5186245--5186315 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 29
5186235 TACTCTAATG
5186245 TAAATATTAAAATAACTATATAAAAATTT
1 TAAATATTAAAATAACTATATAAAAATTT
*
5186274 T-AATAAATAAAA-AA-TATAT-AAAATTAT
1 TAAAT-ATTAAAATAACTATATAAAAATT-T
5186301 TAAATATTAAAATAA
1 TAAATATTAAAATAA
5186316 AAAATATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 6 0.17
27 13 0.36
28 10 0.28
29 7 0.19
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (29 bp):
TAAATATTAAAATAACTATATAAAAATTT
Found at i:5189262 original size:27 final size:26
Alignment explanation
Indices: 5189232--5189293 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
5189222 AGATAATTAA
5189232 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
5189259 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
5189286 AATAAAAT
1 AATAAAAT
5189294 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:5191328 original size:93 final size:93
Alignment explanation
Indices: 5191215--5191387 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
5191205 TTCCCATAAG
* * *
5191215 CGAACTTGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGATTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
5191279 AACGAGCTCAGATGCCTAGTTACATCTCT
65 AACGAGCTCAGATGCCTAGTTACATCTCT
* *
5191308 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
5191373 ACGAGTTCGGATGCC
66 ACGAGCTCAGATGCC
5191388 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:5191383 original size:46 final size:47
Alignment explanation
Indices: 5191208--5191377 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 47
5191198 TGTAACCTTC
* * *
5191208 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGACATTTGCAT
* * * * *
5191254 CCATAAGTGAACTCGGATTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAG--GAC-ATTTGCAT
*
5191304 CTC-T---CGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGACATTTGCAT
*
5191347 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
5191378 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 2 0.02
46 57 0.56
47 24 0.24
48 1 0.01
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGACATTTGCAT
Found at i:5191402 original size:46 final size:46
Alignment explanation
Indices: 5191259--5191402 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
5191249 CGCATCCATA
* * *
5191259 AGTGAACTCGGATTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * *
5191308 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
5191351 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
5191398 AGTGA
1 AGTGA
5191403 TATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 34 0.45
47 27 0.36
48 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:5194017 original size:130 final size:131
Alignment explanation
Indices: 5193842--5194089 Score: 392
Period size: 130 Copynumber: 1.9 Consensus size: 131
5193832 TATTTTAGAA
* *
5193842 TTTAAAGAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAATGAGAAATCGCAA
1 TTTAAAGAACATGAGTGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACGAGAAATCGCAA
* *
5193907 CCCAGCACGATAGGGCACGATTCTCGAATTGCCAAACATCGAGTATTACCTTGGTTTTAAAGAGT
66 CCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCAAGTATTACCTTGGTTTTAAAGAGT
5193972 T
131 T
* * *
5193973 TTTAAAG-ACATGAGTGAGATT-TCAAAGGAATATTCAATTGTTTTGAACAAACGAGAAATTGCA
1 TTTAAAGAACATGAGTGAAATTCT-AAAGGAATATTCAATTATTTTGAACAAACGAGAAATCGCA
* *
5194036 ACCCAGCATGATAGGGCACGATTCCCGAATTGCCAAACATCAAGTATTGCCTTG
65 ACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCAAGTATTACCTTG
5194090 TTCTGGGGGA
Statistics
Matches: 107, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
129 1 0.01
130 99 0.93
131 7 0.07
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (131 bp):
TTTAAAGAACATGAGTGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACGAGAAATCGCAA
CCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCAAGTATTACCTTGGTTTTAAAGAGT
T
Found at i:5199858 original size:36 final size:36
Alignment explanation
Indices: 5199817--5199889 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
5199807 AGACTTCCAT
*
5199817 TAGTTCATTAACAATTAACCTTTACGTCGAACATTA
1 TAGTTCATTAACAATTAAACTTTACGTCGAACATTA
5199853 TAGTTCATTAACAATTAAACTTTACGTCGAACATTA
1 TAGTTCATTAACAATTAAACTTTACGTCGAACATTA
5199889 T
1 T
5199890 GTGCACGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (36 bp):
TAGTTCATTAACAATTAAACTTTACGTCGAACATTA
Found at i:5204293 original size:26 final size:26
Alignment explanation
Indices: 5204257--5204350 Score: 82
Period size: 26 Copynumber: 3.4 Consensus size: 26
5204247 TTATATTTGT
*
5204257 ATAAATTTATACATAATTTTAATGAA
1 ATAAAATTATACATAATTTTAATGAA
* * *
5204283 ATAAAATTATAAATTAAATAAAATT-ATGAGG
1 ATAAAATTATACA-T-AAT---TTTAATGA-A
*
5204314 ATAAATTTATACATAATTTTAATGAA
1 ATAAAATTATACATAATTTTAATGAA
5204340 ATAAAATTATA
1 ATAAAATTATA
5204351 AATTGAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
26 23 0.44
27 5 0.10
28 3 0.06
29 3 0.06
30 5 0.10
31 13 0.25
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.38
Consensus pattern (26 bp):
ATAAAATTATACATAATTTTAATGAA
Found at i:5204295 original size:34 final size:34
Alignment explanation
Indices: 5204256--5204354 Score: 85
Period size: 34 Copynumber: 3.2 Consensus size: 34
5204246 ATTATATTTG
5204256 TATAAATTTATACATAATTTTAATGAAATAAAAT
1 TATAAATTTATACATAATTTTAATGAAATAAAAT
** *
5204290 TATAAA-TTA-A-ATAA----AAT----TATGAG
1 TATAAATTTATACATAATTTTAATGAAATAAAAT
*
5204313 GATAAATTTATACATAATTTTAATGAAATAAAAT
1 TATAAATTTATACATAATTTTAATGAAATAAAAT
5204347 TATAAATT
1 TATAAATT
5204355 GAATAAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 22
0.61 0.11 0.29
Matches are distributed among these distances:
23 8 0.17
24 3 0.07
25 1 0.02
26 4 0.09
27 3 0.07
30 3 0.07
31 4 0.09
32 1 0.02
33 3 0.07
34 16 0.35
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (34 bp):
TATAAATTTATACATAATTTTAATGAAATAAAAT
Found at i:5204323 original size:57 final size:57
Alignment explanation
Indices: 5204257--5204371 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
5204247 TTATATTTGT
5204257 ATAAATTTATACATAATTTTAATGAAATAAAATTATAAATTAAATAAAATTATGAGG
1 ATAAATTTATACATAATTTTAATGAAATAAAATTATAAATTAAATAAAATTATGAGG
*
5204314 ATAAATTTATACATAATTTTAATGAAATAAAATTATAAATTGAATAAAATTATGAGG
1 ATAAATTTATACATAATTTTAATGAAATAAAATTATAAATTAAATAAAATTATGAGG
5204371 A
1 A
5204372 ATTTTAAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (57 bp):
ATAAATTTATACATAATTTTAATGAAATAAAATTATAAATTAAATAAAATTATGAGG
Found at i:5208683 original size:158 final size:157
Alignment explanation
Indices: 5208385--5208671 Score: 407
Period size: 158 Copynumber: 1.8 Consensus size: 157
5208375 TATGCACGAA
* * * *
5208385 AGTTTTAGTTAATTAAATGTCATACTTTATTTTGTTGAGTAAATTTATACGTAGAATTTGTAAAT
1 AGTTTTAATTAATTAAATGTAATACTTTATTTTGTTGAATAAATTTATACATAGAATTTGTAAAT
* * * * *
5208450 CCAGTATTGATTTTTCTATCTATAAGAAAAATATTAATTTGACTGAAGTTAAAGTCTTGCCTCTA
66 CAAGTATTAATTTTTCTATCTATAAG-AAAACATCAATTTGACTAAAGTTAAAGTCTTGCCTCTA
5208515 CCTCATCTTTTTTTTTTTCTAGAGTGCT
130 CCTCATCTTTTTTTTTTTCTAGAGTGCT
* * * *
5208543 AGTTTTAATTAATTGAATGTAATGCTTTTATTTTGTTGAATAATTTTATATATAGAATTTGTAAA
1 AGTTTTAATTAATTAAATGTAATAC-TTTATTTTGTTGAATAAATTTATACATAGAATTTGTAAA
* *
5208608 -CAAGTATTAATTTTTCTATCTATAAG-AAACATCAATTTGACTAAATTTAATGTCTTGCCTCTA
65 TCAAGTATTAATTTTTCTATCTATAAGAAAACATCAATTTGACTAAAGTTAAAGTCTTGCCTCTA
5208671 C
130 C
5208672 TTTCTCTCTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
156 33 0.29
158 45 0.40
159 35 0.31
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.46
Consensus pattern (157 bp):
AGTTTTAATTAATTAAATGTAATACTTTATTTTGTTGAATAAATTTATACATAGAATTTGTAAAT
CAAGTATTAATTTTTCTATCTATAAGAAAACATCAATTTGACTAAAGTTAAAGTCTTGCCTCTAC
CTCATCTTTTTTTTTTTCTAGAGTGCT
Found at i:5211603 original size:22 final size:22
Alignment explanation
Indices: 5211578--5211620 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
5211568 TGCCAATATA
5211578 CATAGTCGAAGCCATCTCGATG
1 CATAGTCGAAGCCATCTCGATG
*
5211600 CATAGTCGAAGCTATCTCGAT
1 CATAGTCGAAGCCATCTCGAT
5211621 AACTATCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (22 bp):
CATAGTCGAAGCCATCTCGATG
Found at i:5215712 original size:11 final size:11
Alignment explanation
Indices: 5215698--5215739 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
5215688 AAAAAAAAAG
5215698 AAAACAGCAAA
1 AAAACAGCAAA
*
5215709 AAAA-AGTAAA
1 AAAACAGCAAA
5215719 AAAACAG-AAA
1 AAAACAGCAAA
5215729 AAAAGCAGCAA
1 AAAA-CAGCAA
5215740 TTTTTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 16 0.59
11 9 0.33
12 2 0.07
ACGTcount: A:0.74, C:0.12, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAACAGCAAA
Found at i:5215733 original size:19 final size:17
Alignment explanation
Indices: 5215689--5215733 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
5215679 AAAATAGTGA
* *
5215689 AAAAAAAAGAAAACAGC
1 AAAAAAAAGAAAAAAAC
5215706 AAAAAAAAGTAAAAAAAC
1 AAAAAAAAG-AAAAAAAC
5215724 AGAAAAAAAG
1 A-AAAAAAAG
5215734 CAGCAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 7 0.29
19 8 0.33
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAC
Found at i:5216808 original size:2 final size:2
Alignment explanation
Indices: 5216803--5216830 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5216793 TTCTAAACTC
5216803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5216831 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5219750 original size:27 final size:24
Alignment explanation
Indices: 5219720--5219777 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 24
5219710 ATATTGTCTC
5219720 AAAATTTACAAATAGTTATAATAAAAT
1 AAAATTTA-AAATA--TATAATAAAAT
*
5219747 AAAATTTTAAAATATATATTAAAAT
1 AAAA-TTTAAAATATATAATAAAAT
*
5219772 TAAATT
1 AAAATT
5219778 GGAAGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 2 0.07
25 13 0.46
27 9 0.32
28 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAATTTAAAATATATAATAAAAT
Found at i:5224562 original size:31 final size:30
Alignment explanation
Indices: 5224523--5224582 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
5224513 ATAAAACTTC
* *
5224523 AAATATATATAAATTGAAATTGAAAATAAA
1 AAATATATATAAATTGAAAATAAAAATAAA
5224553 AAATAATATATAAATTGAAAATAAAAATAA
1 AAAT-ATATATAAATTGAAAATAAAAATAA
5224583 CAGTATTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (30 bp):
AAATATATATAAATTGAAAATAAAAATAAA
Found at i:5224864 original size:8 final size:8
Alignment explanation
Indices: 5224831--5224877 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
5224821 AAATTGATTA
*
5224831 TTTATTTT
1 TTTAATTT
5224839 TTTATATTT
1 TTTA-ATTT
5224848 TTTAAAATTT
1 TTT--AATTT
5224858 TTTAATTT
1 TTTAATTT
5224866 TTT-ATTT
1 TTTAATTT
5224873 TTTAA
1 TTTAA
5224878 GTTAAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 7 0.21
8 13 0.38
9 6 0.18
10 7 0.21
11 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTAATTT
Found at i:5225006 original size:19 final size:20
Alignment explanation
Indices: 5224971--5225018 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
5224961 GGAGTTTTAT
5224971 AATTTATAATATC-TTTTAAA
1 AATTT-TAATATCTTTTTAAA
*
5224991 AATTTTAA-ATCTTTTTTCAA
1 AATTTTAATATC-TTTTTAAA
5225011 AATTTTAA
1 AATTTTAA
5225019 GATATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 19 0.76
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTTAATATCTTTTTAAA
Found at i:5225007 original size:20 final size:21
Alignment explanation
Indices: 5224979--5225028 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
5224969 ATAATTTATA
*
5224979 ATATCTTTTAAAAATTTTAA-
1 ATATTTTTTAAAAATTTTAAG
* *
5224999 ATCTTTTTTCAAAATTTTAAG
1 ATATTTTTTAAAAATTTTAAG
5225020 ATATTTTTT
1 ATATTTTTT
5225029 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATTTTTTAAAAATTTTAAG
Found at i:5234671 original size:21 final size:21
Alignment explanation
Indices: 5234633--5234672 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5234623 TATAACATAT
*
5234633 TATCAACATAGGTAAAAAAAA
1 TATCAAAATAGGTAAAAAAAA
* *
5234654 TATCAAAATATGTCAAAAA
1 TATCAAAATAGGTAAAAAA
5234673 TTAGAGGTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (21 bp):
TATCAAAATAGGTAAAAAAAA
Found at i:5234991 original size:15 final size:16
Alignment explanation
Indices: 5234965--5234995 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
5234955 TATTGTATAA
5234965 AATTTATTTTATTATT
1 AATTTATTTTATTATT
5234981 AATTT-TTTTATTATT
1 AATTTATTTTATTATT
5234996 TTAAAGGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
AATTTATTTTATTATT
Found at i:5239436 original size:16 final size:16
Alignment explanation
Indices: 5239412--5239443 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5239402 GTAGGTAAGA
5239412 TTTTAAGATTTCAAAT
1 TTTTAAGATTTCAAAT
*
5239428 TTTTGAGATTTCAAAT
1 TTTTAAGATTTCAAAT
5239444 CCATTAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.50
Consensus pattern (16 bp):
TTTTAAGATTTCAAAT
Found at i:5241530 original size:32 final size:32
Alignment explanation
Indices: 5241488--5241585 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
5241478 AATTTGATAA
* *
5241488 TTAAT-TTTTTTAT-TTAATTTATTATTTAAAT
1 TTAATATTTTTT-TCTTAATTTAGTAATTAAAT
* **
5241519 TTGATATTTTTTTCTTAATTCGGTAATTAAAT
1 TTAATATTTTTTTCTTAATTTAGTAATTAAAT
*
5241551 TTAATATTTTTTTCTTAATTTAGTACTTAATAT
1 TTAATATTTTTTTCTTAATTTAGTAATTAA-AT
5241584 TT
1 TT
5241586 TCTTTGTCCT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
31 5 0.09
32 46 0.84
33 4 0.07
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (32 bp):
TTAATATTTTTTTCTTAATTTAGTAATTAAAT
Found at i:5242052 original size:30 final size:31
Alignment explanation
Indices: 5242011--5242068 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
5242001 ATAGCATTTA
* *
5242011 ATAAGTTTAAGTACCAGATTAGA-AAAAGTG
1 ATAAATTTAAGTACCAAATTAGACAAAAGTG
5242041 ATAAATTTAAGTACCAAATTAGACAAAA
1 ATAAATTTAAGTACCAAATTAGACAAAA
5242069 AATTAATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.26
Consensus pattern (31 bp):
ATAAATTTAAGTACCAAATTAGACAAAAGTG
Found at i:5242079 original size:24 final size:24
Alignment explanation
Indices: 5242047--5242100 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5242037 AGTGATAAAT
*
5242047 TTAAGTACCAAATTAGACAAAAAA
1 TTAAGTACCAAATTAGAAAAAAAA
*
5242071 TTAATTACCAAATTAGAAAAAAAA
1 TTAAGTACCAAATTAGAAAAAAAA
*
5242095 TCAAGT
1 TTAAGT
5242101 TGAGATACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.24
Consensus pattern (24 bp):
TTAAGTACCAAATTAGAAAAAAAA
Found at i:5243484 original size:72 final size:72
Alignment explanation
Indices: 5243367--5243511 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
5243357 ACAAAGCATA
5243367 TGTATACATATTTATCAAAGACATTGCTAGAAAACAAAGCTCATGCTTATTTTAGTCAAATTAAC
1 TGTATACATATTTATCAAAGACATTGCTAGAAAACAAAGCTCATGCTTATTTTAGTCAAATTAAC
5243432 AACTGCC
66 AACTGCC
5243439 TGTATACATATTTATCAAAGACATTGCTAGAAAACAAAGCTCATGCTTATTTTAGTCAAATTAAC
1 TGTATACATATTTATCAAAGACATTGCTAGAAAACAAAGCTCATGCTTATTTTAGTCAAATTAAC
5243504 AACTGCC
66 AACTGCC
5243511 T
1 T
5243512 CTTCATCGAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (72 bp):
TGTATACATATTTATCAAAGACATTGCTAGAAAACAAAGCTCATGCTTATTTTAGTCAAATTAAC
AACTGCC
Found at i:5249430 original size:22 final size:21
Alignment explanation
Indices: 5249400--5249446 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
5249390 TACAAATTAA
5249400 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
5249422 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
5249443 ATCT
1 ATCT
5249447 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:5249452 original size:19 final size:19
Alignment explanation
Indices: 5249417--5249495 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
5249407 AGATTACAAG
5249417 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
5249438 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
5249455 ATCATGTCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
5249474 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
5249493 ATC
1 ATC
5249496 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
20 1 0.02
21 8 0.15
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:5249504 original size:36 final size:36
Alignment explanation
Indices: 5249419--5249505 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 36
5249409 ATTACAAGAT
*
5249419 CATAT-CTTCAAGATTGCATATCATATCTAAGATTG
1 CATATCCTTAAAGATTGCATATCATATCTAAGATTG
* *
5249454 --TATCATGTCTAAGATTGCATATCATATCTAAGATTG
1 CATATCCT-T-AAAGATTGCATATCATATCTAAGATTG
5249490 CATATCCTTAAAGATT
1 CATATCCTTAAAGATT
5249506 ATATTTCCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
33 3 0.07
34 1 0.02
35 1 0.02
36 32 0.74
37 1 0.02
38 5 0.12
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (36 bp):
CATATCCTTAAAGATTGCATATCATATCTAAGATTG
Found at i:5249917 original size:45 final size:45
Alignment explanation
Indices: 5249852--5249963 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
5249842 GGAAGGCGAT
* * *
5249852 ATCTGTTATCTTTGACCTGCTCCCCGTCTACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
5249897 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
5249942 ATTTGCT-TCTTCAATCTGCTCC
1 ATCTGTTATCTTCGATCTGCTCC
5249964 TTGCAAACTC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 14 0.23
45 47 0.77
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:5250342 original size:89 final size:89
Alignment explanation
Indices: 5250065--5250666 Score: 655
Period size: 89 Copynumber: 6.8 Consensus size: 89
5250055 CAATACAGAG
* * * * * * *
5250065 ATGCCAAATCATCTTAGATTTGCTTT-A-GCGTAAACA-CGTGAAAGCCAAATCTACTATGTCTT
1 ATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATC-TGAAAGTCAGATCTGCTATGTCTT
* *
5250127 CGATTTGTTCCTTGTAAACACAAGG
65 CGATTTGCTCCTTGTAAACACAAGA
** * * * *
5250152 ATGCCAAATCATCTTGGATCTGCTTCAATAT--AAACATCTGAAGGTTAGATCTGCTATGT-GTC
1 ATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCTGAAAGTCAGATCTGCTATGTCTTC
* *
5250214 --TTCT-CTCC--GTCAAATA-TAGA
66 GATT-TGCTCCTTGT-AAACACAAGA
* * *
5250234 GACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCTGAAAGTCAGATCTTCTATG
1 -ATGCCAAATC----ATCTTGGATCTGCTTTGATGTGAAAACATCTGAAAGTCAGATCTGCTATG
5250299 TCTTCGATTTGCTCCTTGTAAACACAAGA
61 TCTTCGATTTGCTCCTTGTAAACACAAGA
* * *
5250328 ATGCCAAATCATCTTGGATCTGC-TTCA-GT-ATAAACACCTGAAGGTCAGATCTGCTATGTCTT
1 ATGCCAAATCATCTTGGATCTGCTTTGATGTGA-AAACATCTGAAAGTCAGATCTGCTATGTCTT
5250390 CGATTTGCTCCTTGTAAACACAAGA
65 CGATTTGCTCCTTGTAAACACAAGA
* *
5250415 ATGCCAAATCATCTTGGATCTGCTTCGATGTGAAAACATC-CAAATGTCAGATCTGCTATGTCTT
1 ATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCTGAAA-GTCAGATCTGCTATGTCTT
5250479 CGATTTGCTCCTTGTAAACACAAGA
65 CGATTTGCTCCTTGTAAACACAAGA
* *
5250504 ATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATC-CAAAGGTCAGATCTACTATGTCTT
1 ATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCTGAAA-GTCAGATCTGCTATGTCTT
* * *
5250568 CAATTTGTTTCTTGTAAACACAAGA
65 CGATTTGCTCCTTGTAAACACAAGA
* * * *
5250593 ATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATC-CAAAGGTCAGATCTGCTATGTCTT
1 ATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCTGAAA-GTCAGATCTGCTATGTCTT
*
5250657 CGATCTGCTC
65 CGATTTGCTC
5250667 TCCGTCGAAT
Statistics
Matches: 440, Mismatches: 51, Indels: 46
0.82 0.09 0.09
Matches are distributed among these distances:
82 4 0.01
83 12 0.03
84 5 0.01
85 1 0.00
86 3 0.01
87 140 0.32
88 9 0.02
89 239 0.54
90 3 0.01
91 1 0.00
92 6 0.01
93 12 0.03
94 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (89 bp):
ATGCCAAATCATCTTGGATCTGCTTTGATGTGAAAACATCTGAAAGTCAGATCTGCTATGTCTTC
GATTTGCTCCTTGTAAACACAAGA
Found at i:5250431 original size:176 final size:175
Alignment explanation
Indices: 5250113--5250666 Score: 703
Period size: 176 Copynumber: 3.1 Consensus size: 175
5250103 TGAAAGCCAA
* * *
5250113 ATCTACTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* * * * * * *
5250178 AATATAAACATCTGAAGGTTAGATCTGCTATGT-GTC-TTCT-CTCC--GTCAAATA-TAGAGAC
66 AGTATAAACACCTGAAGGTCAGATCTGCTATGTCTTCATT-TGCTCCTTGT-AAACACAAGA-AT
* * * *
5250237 GCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCTGAAA-GTCAG
128 GCCAAATC----ATCTTAGATCTGCTTCGATGTGAAAACATC-CAAAGGTCAG
*
5250289 ATCTTCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
5250354 AGTATAAACACCTGAAGGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGC
66 AGTATAAACACCTGAAGGTCAGATCTGCTATGTCTTC-ATTTGCTCCTTGTAAACACAAGAATGC
* *
5250419 CAAATCATCTTGGATCTGCTTCGATGTGAAAACATCCAAATGTCAG
130 CAAATCATCTTAGATCTGCTTCGATGTGAAAACATCCAAAGGTCAG
5250465 ATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTT
1 ATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC-TT
* * * * *
5250530 GATGTGA-AAACATCC-AAAGGTCAGATCTACTATGTCTTCAATTTGTTTCTTGTAAACACAAGA
65 CA-GT-ATAAACA-CCTGAAGGTCAGATCTGCTATGTCTTC-ATTTGCTCCTTGTAAACACAAGA
*
5250593 ATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCAAAGGTCAG
126 ATGCCAAATCATCTTAGATCTGCTTCGATGTGAAAACATCCAAAGGTCAG
*
5250643 ATCTGCTATGTCTTCGATCTGCTC
1 ATCTGCTATGTCTTCGATTTGCTC
5250667 TCCGTCGAAT
Statistics
Matches: 342, Mismatches: 24, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
175 3 0.01
176 187 0.55
177 5 0.01
178 121 0.35
179 9 0.03
180 12 0.04
181 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (175 bp):
ATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
AGTATAAACACCTGAAGGTCAGATCTGCTATGTCTTCATTTGCTCCTTGTAAACACAAGAATGCC
AAATCATCTTAGATCTGCTTCGATGTGAAAACATCCAAAGGTCAG
Found at i:5250846 original size:41 final size:41
Alignment explanation
Indices: 5250789--5250944 Score: 131
Period size: 41 Copynumber: 3.8 Consensus size: 41
5250779 CTATACTTTA
* * * *
5250789 ACCTGTTAGCCTACTGCTTAGGGGGTTAAGGCGTATCTTCG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGGATCTTAG
* *
5250830 ACCTGTTACCCTACTGCTTAGGAGATTAAGGCGGGTCTTAG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGGATCTTAG
* * **
5250871 ATCTGCT-CCACTACTGCTTAGGGAGA-TAAGATCTGCAAAT-TTA-
1 ACCTGTTACC-CTACTGCTTAGGG-GATTAAG----GCGGATCTTAG
*
5250914 ACCTGTTACCTTACTGCTTAGGGGATTAAGG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGG
5250945 TGAGTCGTCG
Statistics
Matches: 92, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
39 1 0.01
40 2 0.02
41 56 0.61
42 4 0.04
43 21 0.23
44 5 0.05
45 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGGATCTTAG
Found at i:5250941 original size:84 final size:84
Alignment explanation
Indices: 5250830--5251448 Score: 944
Period size: 84 Copynumber: 7.4 Consensus size: 84
5250820 CGTATCTTCG
* * *
5250830 ACCTGTTACCCTACTGCTTAGGAGATTAAGGCGGGTCTTAGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
5250895 GATAAGATCTGCAAATTTA
66 GATAAGATCTGCAAATTTA
* * *
5250914 ACCTGTTACCTTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGCTCCGCTACTGCTTAG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAG
* *
5250979 GGAGATAAGATTTGC-----GA
63 GGAGATAAGATCTGCAAATTTA
* * *
5250996 ACCTGTTACCCTACTGCTTAGGGGATTAAGGTGCATCGTCTTCGATCTACTCCACTACTGTTTAG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAG
5251061 GGAGATAAGATCTGCAAATTTA
63 GGAGATAAGATCTGCAAATTTA
* * * *
5251083 ACCTGTTACCCTACCGCTTAGGGGATTAAGGTGAGTATTTGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
5251148 GATAAGATCTGCAAATTTA
66 GATAAGATCTGCAAATTTA
*
5251167 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
5251232 GATAAGATCTGCAAATTTA
66 GATAAGATCTGCAAATTTA
*
5251251 ACCTGTTACTCTACTGCTTA-GGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
*
5251315 GATAAGATCTACAAATTTA
66 GATAAGATCTGCAAATTTA
* *
5251334 ACCTGTTACCCTACTGCTTAGGGGATTAATGTGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
*
5251399 GATAAGATCTGTAAATTTA
66 GATAAGATCTGCAAATTTA
*
5251418 ACCTGTTACCCTATTGCTTAGGGGATTAAGG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGG
5251449 TGCTGAATTT
Statistics
Matches: 489, Mismatches: 34, Indels: 24
0.89 0.06 0.04
Matches are distributed among these distances:
82 68 0.14
83 81 0.17
84 266 0.54
85 4 0.01
86 1 0.00
87 69 0.14
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (84 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTGCAAATTTA
Found at i:5251344 original size:167 final size:168
Alignment explanation
Indices: 5250830--5251450 Score: 957
Period size: 167 Copynumber: 3.7 Consensus size: 168
5250820 CGTATCTTCG
* * *
5250830 ACCTGTTACCCTACTGCTTAGGAGATTAAGGCGGGTCTTAGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
*
5250895 GATAAGATCTGCAAATTTAACCTGTTACCTTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGAT
66 GATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTC-T--TCGAT
* * *
5250960 CTGCTCCGCTACTGCTTAGGGAGATAAGATTTGC-----GA
128 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTA
* * *
5250996 ACCTGTTACCCTACTGCTTAGGGGATTAAGGTGCATCGTCTTCGATCTACTCCACTACTGTTTAG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAG
* * *
5251061 GGAGATAAGATCTGCAAATTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGTGAGTATTTGAT
63 GGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGAT
5251126 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTA
128 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTA
*
5251167 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
* *
5251232 GATAAGATCTGCAAATTTAACCTGTTACTCTACTGCTTA-GGGATTAAGGCGAGTCTTCGATCTG
66 GATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTG
*
5251296 CTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTA
131 CTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTA
* *
5251334 ACCTGTTACCCTACTGCTTAGGGGATTAATGTGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
* *
5251399 GATAAGATCTGTAAATTTAACCTGTTACCCTATTGCTTAGGGGATTAAGGTG
66 GATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTG
5251451 CTGAATTTTG
Statistics
Matches: 416, Mismatches: 30, Indels: 16
0.90 0.06 0.03
Matches are distributed among these distances:
166 67 0.16
167 157 0.38
168 77 0.19
169 81 0.19
170 1 0.00
171 33 0.08
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (168 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTG
CTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTA
Found at i:5251380 original size:251 final size:251
Alignment explanation
Indices: 5250830--5251448 Score: 951
Period size: 251 Copynumber: 2.5 Consensus size: 251
5250820 CGTATCTTCG
* * *
5250830 ACCTGTTACCCTACTGCTTAGGAGATTAAGGCGGGTCTTAGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTAGATCTGCTCCACTACTGCTTAGGGA
* *
5250895 GATAAGATCTGCAAATTTAACCTGTTACCTTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGAT
66 GATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTC-TCGAT
* * *
5250960 CTGCTCCGCTACTGCTTAGGGAGATAAGATTTGCGAACCTGTTACCCTACTGCTTAGGGGATTAA
130 CTGCTCCACTACTACTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACTGCTTAGGGGATTAA
* * *
5251025 GGTGCATCGTCTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTGCAAATTTA
195 GGCGCA-CGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTA
* * *
5251083 ACCTGTTACCCTACCGCTTAGGGGATTAAGGTGAGTATTTGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTAGATCTGCTCCACTACTGCTTAGGGA
5251148 GATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T-TCGATC
66 GATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCTCGATC
* *
5251211 TGCTCCACTACTACTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACTCTACTGCTTA-GGGA
131 TGCTCCACTACTACTTAGGGAGATAAGATCTGC-----GAACCTGTTACCCTACTGCTTAGGGGA
*
5251275 TTAAGGCG-A-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTA
191 TTAAGGCGCACGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTA
* *
5251334 ACCTGTTACCCTACTGCTTAGGGGATTAATGTGAGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTAGATCTGCTCCACTACTGCTTAGGGA
* *
5251399 GATAAGATCTGTAAATTTAACCTGTTACCCTATTGCTTAGGGGATTAAGG
66 GATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGG
5251449 TGCTGAATTT
Statistics
Matches: 338, Mismatches: 23, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
250 36 0.11
251 156 0.46
252 1 0.00
253 114 0.34
254 11 0.03
255 20 0.06
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (251 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTAGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCTCGATC
TGCTCCACTACTACTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACTGCTTAGGGGATTAAG
GCGCACGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTA
Found at i:5252409 original size:1 final size:1
Alignment explanation
Indices: 5252398--5252504 Score: 79
Period size: 1 Copynumber: 107.0 Consensus size: 1
5252388 GGCCTCTCCA
* * * * * * * * * *
5252398 TTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTCTCTTTTTTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
5252463 TTTTTATTTTTTTCTTTTTCTTTTCTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5252505 GAAATAGAAG
Statistics
Matches: 76, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:5252409 original size:7 final size:7
Alignment explanation
Indices: 5252397--5252504 Score: 125
Period size: 7 Copynumber: 15.7 Consensus size: 7
5252387 TGGCCTCTCC
5252397 ATTTTTT
1 ATTTTTT
5252404 ATTTTTT
1 ATTTTTT
5252411 ATTTTTT
1 ATTTTTT
5252418 ATTTTTT
1 ATTTTTT
5252425 ATTTTTT
1 ATTTTTT
5252432 ATTTTTT
1 ATTTTTT
5252439 ATTTTTT
1 ATTTTTT
5252446 ATTTTTT
1 ATTTTTT
*
5252453 CTCTTTTT
1 AT-TTTTT
5252461 -TATTTTT
1 AT-TTTTT
5252468 ATTTTTT
1 ATTTTTT
*
5252475 -TCTTTT
1 ATTTTTT
*
5252481 -TCTTTT
1 ATTTTTT
*
5252487 CTTTTTT
1 ATTTTTT
*
5252494 CTTTTTT
1 ATTTTTT
5252501 -TTTT
1 ATTTT
5252505 GAAATAGAAG
Statistics
Matches: 94, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
6 15 0.16
7 73 0.78
8 6 0.06
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:5258176 original size:22 final size:21
Alignment explanation
Indices: 5258146--5258192 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
5258136 TACAAATTAA
5258146 ATCTCCAAG-TTTACAAGATCAT
1 ATCTCCAAGATTT-C-AGATCAT
* *
5258168 ATCTTCAAGATTTCATATCAT
1 ATCTCCAAGATTTCAGATCAT
5258189 ATCT
1 ATCT
5258193 AAGAGTGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 10 0.45
22 9 0.41
23 3 0.14
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.38
Consensus pattern (21 bp):
ATCTCCAAGATTTCAGATCAT
Found at i:5258203 original size:19 final size:19
Alignment explanation
Indices: 5258163--5258260 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
5258153 AGTTTACAAG
*
5258163 ATCATATCTTCAAGATTTCAT
1 ATCATATC-T-AAGATTGCAT
*
5258184 ATCATATCTAAGAGTGCAT
1 ATCATATCTAAGATTGCAT
5258203 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
5258220 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
5258239 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
5258258 ATC
1 ATC
5258261 CTTAAAGATT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.24
19 46 0.64
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:5258227 original size:36 final size:36
Alignment explanation
Indices: 5258183--5258254 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
5258173 CAAGATTTCA
5258183 TATCATATCTAAGAGTGCATATCATATCTAAGATTG
1 TATCATATCTAAGAGTGCATATCATATCTAAGATTG
*
5258219 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGAGTGCATATCATATCTAAGATTG
5258255 CATATCCTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (36 bp):
TATCATATCTAAGAGTGCATATCATATCTAAGATTG
Found at i:5258668 original size:44 final size:44
Alignment explanation
Indices: 5258605--5258692 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
5258595 ACAACTTAGT
* *
5258605 AGTCACTTCGAAGAATATAAACAATGCAAGTCCAAGAGTTAAAA
1 AGTCACTTCAAAGAATATAAACAATGCAAATCCAAGAGTTAAAA
* * *
5258649 AGTCACTTCAAATAATATAAACAATGCAAATTCAATAGTTAAAA
1 AGTCACTTCAAAGAATATAAACAATGCAAATCCAAGAGTTAAAA
5258693 GTGATGGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (44 bp):
AGTCACTTCAAAGAATATAAACAATGCAAATCCAAGAGTTAAAA
Found at i:5261499 original size:13 final size:13
Alignment explanation
Indices: 5261478--5261522 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
5261468 TTCCTTAATC
*
5261478 TTTAATTTATTAT
1 TTTATTTTATTAT
5261491 TTTATTTTAGTTA-
1 TTTATTTTA-TTAT
5261504 TTTATTTTAATTAT
1 TTTATTTT-ATTAT
5261518 TTTAT
1 TTTAT
5261523 CTAACTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:5262361 original size:18 final size:18
Alignment explanation
Indices: 5262311--5262361 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
5262301 TAAGAAAATA
* *
5262311 ATAATGATTAAAGTATATT
1 ATAATAATTAAA-TATAAT
5262330 ATAATAA-TATAATATAAT
1 ATAATAATTA-AATATAAT
*
5262348 ATAGTAATTAAATA
1 ATAATAATTAAATA
5262362 AAACAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
ATAATAATTAAATATAAT
Found at i:5263293 original size:6 final size:6
Alignment explanation
Indices: 5263284--5263321 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
5263274 TCTGTACCTG
* *
5263284 ACTGTG ACTGTT ACTGCT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
5263322 CCTACGGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (6 bp):
ACTGTT
Found at i:5273351 original size:13 final size:13
Alignment explanation
Indices: 5273333--5273358 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5273323 GTGAAAACCA
5273333 TCACTTTCTAGAG
1 TCACTTTCTAGAG
5273346 TCACTTTCTAGAG
1 TCACTTTCTAGAG
5273359 CCTTTAGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TCACTTTCTAGAG
Found at i:5275708 original size:3 final size:3
Alignment explanation
Indices: 5275700--5275837 Score: 57
Period size: 3 Copynumber: 46.3 Consensus size: 3
5275690 TCCCATTTCT
* * * * * *
5275700 TTA TTA TTA CTA TTA TCA TTA TTA TTTG TTGC TTA AT- TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA
* * ** * *
5275746 TTT TTA TTT TTA TCC TCA TTA TTA TTA TTA TTA TTA TTA CTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * **
5275793 TGA -TA CTA TCA TTA CTA TTA TTA TTC TAA TTA CGA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5275838 ATATATACAT
Statistics
Matches: 95, Mismatches: 35, Indels: 10
0.68 0.25 0.07
Matches are distributed among these distances:
2 3 0.03
3 88 0.93
4 4 0.04
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:5275879 original size:25 final size:24
Alignment explanation
Indices: 5275828--5275890 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
5275818 CTAATTACGA
*
5275828 TTATTATTATATATATACATACCTT
1 TTATTATTAT-TATATACATACATT
* *
5275853 TTATTATTATTCATGTACATATATT
1 TTATTATTATT-ATATACATACATT
*
5275878 TTAAATATTATTA
1 TT-ATTATTATTA
5275891 CCATTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 23 0.72
26 8 0.25
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (24 bp):
TTATTATTATTATATACATACATT
Found at i:5276265 original size:21 final size:23
Alignment explanation
Indices: 5276227--5276282 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
5276217 TGTATTATAA
*
5276227 TTATTATT-ATACTTTTA-TTTC
1 TTATTATTCATACTATTAGTTTC
5276248 TTATTATTCAT-CTATTATGTTTC
1 TTATTATTCATACTATTA-GTTTC
5276271 TTATCTATTCAT
1 TTAT-TATTCAT
5276283 GTTTCCATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 13 0.43
22 2 0.07
23 8 0.27
24 7 0.23
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATTATTCATACTATTAGTTTC
Found at i:5280426 original size:24 final size:24
Alignment explanation
Indices: 5280398--5280443 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
5280388 AAAATCAAAA
5280398 AAATTAAT-TATTGTTTGAAACTAT
1 AAATTAATATATT-TTTGAAACTAT
*
5280422 AAATTAATATATTTTTGTAACT
1 AAATTAATATATTTTTGAAACT
5280444 TTTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (24 bp):
AAATTAATATATTTTTGAAACTAT
Found at i:5280496 original size:16 final size:17
Alignment explanation
Indices: 5280465--5280498 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
5280455 GTTAAGTTTC
5280465 CAAAATTATAAAAAAAT
1 CAAAATTATAAAAAAAT
5280482 CAAAA-TATCAAAAAAAT
1 CAAAATTAT-AAAAAAAT
5280499 TCTTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
CAAAATTATAAAAAAAT
Found at i:5293545 original size:21 final size:21
Alignment explanation
Indices: 5293503--5293545 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
5293493 TATAATTCCT
*
5293503 CCATGTTTGGAAGGAATAGGC
1 CCATGTTTGGAAGGAAGAGGC
*
5293524 CCATGTTT-GATGGAAGATGGC
1 CCATGTTTGGAAGGAAGA-GGC
5293545 C
1 C
5293546 AGAGAGCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.26
Consensus pattern (21 bp):
CCATGTTTGGAAGGAAGAGGC
Found at i:5294234 original size:18 final size:19
Alignment explanation
Indices: 5294205--5294277 Score: 123
Period size: 18 Copynumber: 3.9 Consensus size: 19
5294195 ATAATCTTCA
5294205 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5294224 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5294242 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
5294260 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
5294278 AGATATGATT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
18 36 0.69
19 16 0.31
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5294796 original size:15 final size:14
Alignment explanation
Indices: 5294753--5294804 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
5294743 TTTCTAAACC
*
5294753 AATATATTTTATAT
1 AATATATTTTTTAT
5294767 AAT-TATTATTCTTAT
1 AATATATT-TT-TTAT
5294782 AAATATATTTTTTAT
1 -AATATATTTTTTAT
*
5294797 TATATATT
1 AATATATT
5294805 ATATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 4 0.12
14 12 0.38
15 7 0.22
16 5 0.16
17 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
AATATATTTTTTAT
Found at i:5294836 original size:26 final size:26
Alignment explanation
Indices: 5294788--5294837 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
5294778 TTATAAATAT
* * * *
5294788 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
5294814 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
5294838 TTATATGCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:5306001 original size:18 final size:18
Alignment explanation
Indices: 5305962--5306012 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
5305952 TGTATATTAT
* **
5305962 TTTTATATTATATACGTT
1 TTTTATATTATATATGCA
5305980 TTTTATATTATATATGCA
1 TTTTATATTATATATGCA
5305998 TTTTACT-TTATATAT
1 TTTTA-TATTATATAT
5306013 TATTTATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTTATATTATATATGCA
Found at i:5306769 original size:63 final size:62
Alignment explanation
Indices: 5306629--5306777 Score: 183
Period size: 62 Copynumber: 2.4 Consensus size: 62
5306619 ATCTATGATC
* * * * * *
5306629 ATATATGCATAAAATGATAACGTATATTGTGTCATTTATGCCATTATTCATCATTTTTTATT
1 ATATATGCATGAAATGTTAAAGTATATTGTGTCATTTATGCCAGTATTCACCATTTTTCATT
* * *
5306691 ATATATGCATGAAATGTTAAAGTATATTGTGTGATTTATGTC-GTATTTACCATTTTCTACATT
1 ATATATGCATGAAATGTTAAAGTATATTGTGTCATTTATGCCAGTATTCACCATTTT-T-CATT
*
5306754 ATATTTGCATGAAATGTTAAAGTA
1 ATATATGCATGAAATGTTAAAGTA
5306778 CGTAGTTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
61 11 0.15
62 38 0.51
63 26 0.35
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (62 bp):
ATATATGCATGAAATGTTAAAGTATATTGTGTCATTTATGCCAGTATTCACCATTTTTCATT
Found at i:5308293 original size:39 final size:39
Alignment explanation
Indices: 5308239--5308335 Score: 194
Period size: 39 Copynumber: 2.5 Consensus size: 39
5308229 AACTTCCATT
5308239 ACCAAGCAACCTACTATCATTGAATCTGTCAGTAGCTTG
1 ACCAAGCAACCTACTATCATTGAATCTGTCAGTAGCTTG
5308278 ACCAAGCAACCTACTATCATTGAATCTGTCAGTAGCTTG
1 ACCAAGCAACCTACTATCATTGAATCTGTCAGTAGCTTG
5308317 ACCAAGCAACCTACTATCA
1 ACCAAGCAACCTACTATCA
5308336 ATAAATGAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (39 bp):
ACCAAGCAACCTACTATCATTGAATCTGTCAGTAGCTTG
Found at i:5308841 original size:17 final size:17
Alignment explanation
Indices: 5308808--5308842 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5308798 TTGTTTGTGG
**
5308808 TTTTTATAAAAGTATTA
1 TTTTTATAAAAAAATTA
5308825 TTTTTATAAAAAAATTA
1 TTTTTATAAAAAAATTA
5308842 T
1 T
5308843 GTTAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTTTATAAAAAAATTA
Found at i:5309418 original size:280 final size:278
Alignment explanation
Indices: 5308917--5309477 Score: 1068
Period size: 280 Copynumber: 2.0 Consensus size: 278
5308907 TTGCGTATTT
5308917 TTATCAAAAAATGAACTTTTAAATATTTTTAATTTTTAATTTTTAAGAAGTAAAACTAAATTGAT
1 TTATCAAAAAATGAACTTTTAAATATTTTTAATTTTTAATTTTTAAGAAGTAAAACTAAATTGAT
*
5308982 AGAATGTGTGAAGTTGAGGGTTAAATTTGTTGATTTTTTAGATTTAGGACTAAATTGATAGAATT
66 AGAATGTGTGAAGTTGAGGGTTAAATTTGTTGATTTTTTAGATGTAGGACTAAATTGATAGAATT
5309047 TATCAATATTTGAGAGTTAAATTTATTATTACGTCAATAGAAAAGTCACCATTAGTGACAGAACC
131 TATCAATATTTGAGAGTTAAATTTATTATTACGTCAATAGAAAAGTCACCATTAGTGACAGAACC
5309112 GAGGCTAAAATAGAAAATTTTAAATTTGAATGACCAAAATAAAAATATACTAATAATTAGGTGAC
196 GAGGCTAAAATAGAAAATTTTAAATTTGAATGACCAAAATAAAAATATACTAATAATTAGGTGAC
5309177 TATTTTTATAGTTTGTCTGG
261 --TTTTTATAGTTTGTCTGG
5309197 TTATCAAAAAATGAACTTTTAAATATTTTTAATTTTTAATTTTTAAGAAGTAAAACTAAATTGAT
1 TTATCAAAAAATGAACTTTTAAATATTTTTAATTTTTAATTTTTAAGAAGTAAAACTAAATTGAT
*
5309262 AGAATGTGTGGAGTTGAGGGTTAAATTTGTTGATTTTTTAGATGTAGGACTAAATTGATAGAATT
66 AGAATGTGTGAAGTTGAGGGTTAAATTTGTTGATTTTTTAGATGTAGGACTAAATTGATAGAATT
* *
5309327 TATCAATATTTGAGAGTTAAATTTATTATTATGTCAATAGAAAAGTCACCATTAGTGATAGAACC
131 TATCAATATTTGAGAGTTAAATTTATTATTACGTCAATAGAAAAGTCACCATTAGTGACAGAACC
5309392 GAGGCTAAAATAGAAAATTTTAAATTTGAATGACCAAAATAAAAATATACTAATAATTAGGTGAC
196 GAGGCTAAAATAGAAAATTTTAAATTTGAATGACCAAAATAAAAATATACTAATAATTAGGTGAC
5309457 TTTTTATAGTTTGTCTGG
261 TTTTTATAGTTTGTCTGG
5309475 TTA
1 TTA
5309478 CCCAAATTTC
Statistics
Matches: 277, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
278 21 0.08
280 256 0.92
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (278 bp):
TTATCAAAAAATGAACTTTTAAATATTTTTAATTTTTAATTTTTAAGAAGTAAAACTAAATTGAT
AGAATGTGTGAAGTTGAGGGTTAAATTTGTTGATTTTTTAGATGTAGGACTAAATTGATAGAATT
TATCAATATTTGAGAGTTAAATTTATTATTACGTCAATAGAAAAGTCACCATTAGTGACAGAACC
GAGGCTAAAATAGAAAATTTTAAATTTGAATGACCAAAATAAAAATATACTAATAATTAGGTGAC
TTTTTATAGTTTGTCTGG
Found at i:5314109 original size:19 final size:19
Alignment explanation
Indices: 5314087--5314140 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
5314077 ATTCAACTCG
5314087 GAAGATCTCCTTCAAGACT
1 GAAGATCTCCTTCAAGACT
5314106 GAAGATCTCCTTCAAGACT
1 GAAGATCTCCTTCAAGACT
5314125 GAAGATCTCCATTCAA
1 GAAGATCTCC-TTCAA
5314141 TTTCTCTCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 29 0.85
20 5 0.15
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (19 bp):
GAAGATCTCCTTCAAGACT
Found at i:5318986 original size:18 final size:18
Alignment explanation
Indices: 5318963--5319000 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5318953 TAAAAAGCAT
*
5318963 AATATACAAAACAGTTTA
1 AATATACAAAACAATTTA
*
5318981 AATATATAAAACAATTTA
1 AATATACAAAACAATTTA
5318999 AA
1 AA
5319001 GTAAGTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (18 bp):
AATATACAAAACAATTTA
Found at i:5319032 original size:23 final size:22
Alignment explanation
Indices: 5318979--5319033 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
5318969 CAAAACAGTT
5318979 TAAATATATAAAACAATTTAAAG
1 TAAATA-ATAAAACAATTTAAAG
* *
5319002 TAAGTAATAAAACTATTTTAGAA-
1 TAAATAATAAAAC-AATTTA-AAG
5319025 TAAATAATA
1 TAAATAATA
5319034 CATAAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 7 0.26
23 18 0.67
24 2 0.07
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (22 bp):
TAAATAATAAAACAATTTAAAG
Found at i:5321321 original size:27 final size:27
Alignment explanation
Indices: 5321291--5321344 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
5321281 TTATTTATTT
5321291 TTTA-AACTATAAAAATATTTTTTAAAA
1 TTTATAACTATAAAAAT-TTTTTTAAAA
* **
5321318 TTTATAATTATGTAAATTTTTTTAAAA
1 TTTATAACTATAAAAATTTTTTTAAAA
5321345 ACCATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTATAACTATAAAAATTTTTTTAAAA
Found at i:5321428 original size:22 final size:24
Alignment explanation
Indices: 5321403--5321453 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
5321393 GTTAAATTTC
5321403 AAAATTTAT-AAAAAAAAA-TCTA
1 AAAATTTATCAAAAAAAAATTCTA
*
5321425 AAAA--TATCAAAAAAAAATTCTG
1 AAAATTTATCAAAAAAAAATTCTA
5321447 AAAATTT
1 AAAATTT
5321454 CTCTAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 3 0.12
21 9 0.38
22 11 0.46
24 1 0.04
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAATTTATCAAAAAAAAATTCTA
Found at i:5323658 original size:20 final size:19
Alignment explanation
Indices: 5323623--5323660 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
5323613 CTTTTTATAT
5323623 TTTAATTTTCTTTAAATAC
1 TTTAATTTTCTTTAAATAC
5323642 TTTATATTTT-TTATAAATA
1 TTTA-ATTTTCTT-TAAATA
5323661 TTAGTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATTTTCTTTAAATAC
Found at i:5325257 original size:31 final size:30
Alignment explanation
Indices: 5325217--5325275 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
5325207 AAAATAAGTT
5325217 AAATAATAATATA-ATATGAATAGAATATAAGG
1 AAATAATAATATATA-AT-AATA-AATATAAGG
5325249 AAAT-ATAATATATAATAATAAATATAA
1 AAATAATAATATATAATAATAAATATAA
5325276 TAAGTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.27
30 4 0.15
31 10 0.38
32 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATAATAATATATAATAATAAATATAAGG
Found at i:5325877 original size:20 final size:19
Alignment explanation
Indices: 5325854--5325891 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
5325844 ATATAACTAA
5325854 TATTTATAA-AAAATATAAAG
1 TATTTA-AAGAAAAT-TAAAG
5325874 TATTTAAAGAAAATTAAA
1 TATTTAAAGAAAATTAAA
5325892 ATATAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
TATTTAAAGAAAATTAAAG
Found at i:5333432 original size:20 final size:20
Alignment explanation
Indices: 5333404--5333448 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
5333394 CTTCTATTTC
5333404 AAAAAAAAAAGAGAGAAA-AG
1 AAAAAAAAAAGAGA-AAATAG
* *
5333424 AAAAGAAAAATAGAAAATAG
1 AAAAAAAAAAGAGAAAATAG
5333444 AAAAA
1 AAAAA
5333449 GAGAAAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAGAGAAAATAG
Found at i:5334618 original size:35 final size:35
Alignment explanation
Indices: 5334572--5334642 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
5334562 TTTTTTCTTT
* *
5334572 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
1 TTATTCTGTCACGACTGGAGTCGTAGGCACGACGC
5334607 TTATTCTGTCACGACTGGAGTCGTAGGCACGACGC
1 TTATTCTGTCACGACTGGAGTCGTAGGCACGACGC
5334642 T
1 T
5334643 GATCTGATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (35 bp):
TTATTCTGTCACGACTGGAGTCGTAGGCACGACGC
Found at i:5342050 original size:12 final size:11
Alignment explanation
Indices: 5342031--5342139 Score: 59
Period size: 11 Copynumber: 9.9 Consensus size: 11
5342021 ATCATGTTCC
*
5342031 ACAAAAAAAGG
1 ACAAAAAAAAG
5342042 ACAAAAAAAAG
1 ACAAAAAAAAG
5342053 AC--AAAAAAG
1 ACAAAAAAAAG
5342062 A-AAAAAAAAG
1 ACAAAAAAAAG
*
5342072 A-AGAAGAAATAAT
1 ACA-AA-AAA-AAG
*
5342085 TCGAAAAAAAAG
1 AC-AAAAAAAAG
5342097 --AAAAAAAAG
1 ACAAAAAAAAG
*
5342106 AAAAAAGAAAAG
1 ACAAAA-AAAAG
*
5342118 AGAGAAAAAAAG
1 ACA-AAAAAAAG
**
5342130 TTAAAAAAAA
1 ACAAAAAAAA
5342140 TAAAAAGTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
9 17 0.21
10 9 0.11
11 25 0.31
12 18 0.22
13 8 0.10
14 2 0.03
15 1 0.01
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.05
Consensus pattern (11 bp):
ACAAAAAAAAG
Found at i:5342058 original size:9 final size:8
Alignment explanation
Indices: 5342045--5342129 Score: 57
Period size: 8 Copynumber: 10.0 Consensus size: 8
5342035 AAAAAGGACA
5342045 AAAAAAAG
1 AAAAAAAG
5342053 ACAAAAAAG
1 A-AAAAAAG
5342062 AAAAAAA-
1 AAAAAAAG
*
5342069 AAGAAGAAG
1 AA-AAAAAG
**
5342078 AAATAATTCG
1 AAA-AA-AAG
5342088 AAAAAAAAG
1 -AAAAAAAG
5342097 AAAAAAA-
1 AAAAAAAG
5342104 AGAAAAAAG
1 A-AAAAAAG
*
5342113 AAAAGAGAG
1 AAAA-AAAG
5342122 AAAAAAAG
1 AAAAAAAG
5342130 TTAAAAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
7 3 0.05
8 31 0.52
9 20 0.33
10 3 0.05
11 3 0.05
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:5342136 original size:44 final size:43
Alignment explanation
Indices: 5342043--5342145 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 43
5342033 AAAAAAAGGA
*
5342043 CAAAAAAAAGACAAAAAAGAAAAAAAAAGAAGAAGAAATAATT
1 CAAAAAAAAGAAAAAAAAGAAAAAAAAAGAAGAAGAAATAATT
5342086 CGAAAAAAAAGAAAAAAAAGAAAAAAGAAAAGAGAGAA-AAA-AAGTT
1 C-AAAAAAAAGAAAAAAAAG-AAAAA-AAAAGA-AGAAGAAATAA-TT
*
5342132 -AAAAAAAATAAAAA
1 CAAAAAAAAGAAAAA
5342146 GTTTGATGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
43 1 0.02
44 30 0.57
45 7 0.13
46 11 0.21
47 4 0.08
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.06
Consensus pattern (43 bp):
CAAAAAAAAGAAAAAAAAGAAAAAAAAAGAAGAAGAAATAATT
Found at i:5342145 original size:9 final size:9
Alignment explanation
Indices: 5342044--5342128 Score: 61
Period size: 9 Copynumber: 9.8 Consensus size: 9
5342034 AAAAAAGGAC
5342044 AAAAAAAAG
1 AAAAAAAAG
*
5342053 ACAAAAAAG
1 AAAAAAAAG
5342062 -AAAAAAA-
1 AAAAAAAAG
* *
5342069 AAGAAGAAG
1 AAAAAAAAG
***
5342078 AAATAATTCG
1 AAA-AAAAAG
5342088 AAAAAAAAG
1 AAAAAAAAG
5342097 AAAAAAAAG
1 AAAAAAAAG
5342106 --AAAAAAG
1 AAAAAAAAG
* *
5342113 AAAAGAGAG
1 AAAAAAAAG
5342122 AAAAAAA
1 AAAAAAA
5342129 GTTAAAAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
7 7 0.12
8 11 0.20
9 32 0.57
10 6 0.11
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:5342917 original size:35 final size:35
Alignment explanation
Indices: 5342871--5342941 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
5342861 TTTTTTCTTT
5342871 TTATTCCGTCACGGCTGGAGTCATGGGCACGACGC
1 TTATTCCGTCACGGCTGGAGTCATGGGCACGACGC
* *
5342906 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACGC
1 TTATTCCGTCACGGCTGGAGTCATGGGCACGACGC
5342941 T
1 T
5342942 GATCTGACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.15, C:0.27, G:0.32, T:0.25
Consensus pattern (35 bp):
TTATTCCGTCACGGCTGGAGTCATGGGCACGACGC
Found at i:5344330 original size:127 final size:127
Alignment explanation
Indices: 5344102--5344345 Score: 375
Period size: 127 Copynumber: 1.9 Consensus size: 127
5344092 CTTGTTAGGT
* *
5344102 AGCAGATCAAAGACATAGCAGATCTGACATTCATCGGGGCAGATCCAAGATGGCGGATCTTATCT
1 AGCAGATCAAAGACATAGCAGATCTGACATTCATCGGGGCAGATCCAAGATGACAGATCTTATCT
* * *
5344167 CTCTGTAATAAGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGG
66 CTCCGTAATAAGCGGAGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTATTCGACAGGG
* *
5344229 AGCAGATCGAAGACATAGCAGA-CTTGACCTTCATCGGGGCAGATCCAAGATGACAGATCTTATC
1 AGCAGATCAAAGACATAGCAGATC-TGACATTCATCGGGGCAGATCCAAGATGACAGATCTTATC
* *
5344293 TCTCCGTAAT-GGACGGGGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTA
65 TCTCCGTAATAAG-CGGAGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTA
5344346 ATGGGCGGGG
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
126 2 0.02
127 104 0.98
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (127 bp):
AGCAGATCAAAGACATAGCAGATCTGACATTCATCGGGGCAGATCCAAGATGACAGATCTTATCT
CTCCGTAATAAGCGGAGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTATTCGACAGGG
Found at i:5344444 original size:172 final size:172
Alignment explanation
Indices: 5344157--5344517 Score: 616
Period size: 172 Copynumber: 2.1 Consensus size: 172
5344147 CAAGATGGCG
5344157 GATCTTATCTCTCTGTAATAAGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTC
1 GATCTTATCTCTCTGTAATAAGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTC
* * *
5344222 GACAGGGAGCAGATCGAAGACATAGCAGACTTGACCTTCATCGGGGCAGATCCAAGATGACAGAT
66 GACAGGGAGCAGATCAAAGACATAGCAGACTTGACCTTCATCGAGGCAGATCAAAGATGACAGAT
5344287 CTTATCTCTCCGTAATGGACGGGGAGTAGATCAAAGATAACA
131 CTTATCTCTCCGTAATGGACGGGGAGTAGATCAAAGATAACA
** *
5344329 GATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTC
1 GATCTTATCTCTCTGTAATAAGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTC
5344394 GACAGGGAGCAGATCAAAGACATAGCAGA-TCTGACCTTCATCGAGGCAGATCAAAGATGACAGA
66 GACAGGGAGCAGATCAAAGACATAGCAGACT-TGACCTTCATCGAGGCAGATCAAAGATGACAGA
* * * *
5344458 TCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACA
130 TCTTATCTCTCCGTAATGGACGGGGAGTAGATCAAAGATAACA
5344501 GATCTTATCTCTCTGTA
1 GATCTTATCTCTCTGTA
5344518 TTCGATGGGG
Statistics
Matches: 178, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
171 1 0.01
172 177 0.99
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (172 bp):
GATCTTATCTCTCTGTAATAAGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTC
GACAGGGAGCAGATCAAAGACATAGCAGACTTGACCTTCATCGAGGCAGATCAAAGATGACAGAT
CTTATCTCTCCGTAATGGACGGGGAGTAGATCAAAGATAACA
Found at i:5344640 original size:299 final size:297
Alignment explanation
Indices: 5344102--5345043 Score: 1161
Period size: 299 Copynumber: 3.2 Consensus size: 297
5344092 CTTGTTAGGT
* * * * *
5344102 AGCAGATCAAAGACATAGCAGATCTGACATTCATCGGGGCAGATCCAAGATGGCGGATCTTATCT
1 AGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATCAAAGATGACAGATCTTATCT
** *
5344167 CTCTGTAATAAGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGGAGC
66 CTCTGTAATGGGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
*
5344232 AGATCGAAGACATAGCAGA-CTTGACCTTCATCGGGGCAGATCCAAGATGACAGATCTTATCTCT
131 AGATCGAAGACATAGTAGATC-TGACCTTCATC-GGGCAGATCCAAGATGACAGATCTTATCTCT
* * * *
5344296 CCGTAATGGACGGGGAGTAGATCAAAGATAACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAG
194 CTGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAG
5344361 ATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGG
259 ATCCAAGATGACAGATCTTATCTCTCTGTATTCGAC-GGG
5344401 AGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATCAAAGATGACAGATCTTATCT
1 AGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATCAAAGATGACAGATCTTATCT
* *
5344466 CTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGATGGGGAGC
66 CTCTGTAATGGGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
*
5344531 AGATCGAAGACATAGTAGATCTGACCTTCATCAGGGCAGATCTAAGATGACAGATCTTATCTCTC
131 AGATCGAAGACATAGTAGATCTGACCTTCATC-GGGCAGATCCAAGATGACAGATCTTATCTCTC
* * * * *
5344596 TGTAATAGG-CGGGGAGTAGATCCAAGATGGCAGATCTTATCTCTCTGTATTCGACAGGGAGCAG
195 TGTAAT-GGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAG
* * *
5344660 ATCGAAGACAT-AGCAGATCTGA-C-CT-T-CA-T---CGGG
259 ATCCAAG--ATGA-CAGATCTTATCTCTCTGTATTCGACGGG
* * ** ** * * * * * *
5344693 -GCAGATCCAAGATGACAGATCTTATCTCTCCGTAATAGACGGTGAGTAGATAAAAAATGACAGA
1 AGCAGAT-CAA-A-GACATAGCAGATCTGACCTTCAT---C-GAG-GCAGATCAAAGATGACAGA
* * * *
5344757 TCTTATCTCTCTGTAATGGACAGAAAGTAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGA
58 TCTTATCTCTCTGTAATGGGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGA
* * * * * *
5344822 CGGGGAGCAGATCGAAAACGTAGTAGCTCTGACCTTCATCGGGACAGATCCAGGATGGCGGATCT
123 CGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATCGGG-CAGATCCAAGATGACAGATCT
*
5344887 TATCTCTCTGTAATGGACGGGGAGTAGTTCCAAGATGACAGATCTTATCTCTCTGTAATGGACGG
187 TATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGG
*
5344952 AGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGG
252 GGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGAC-GGG
* * * * *
5344999 AGCAGATCAAAAACATAACAGATCTGACTTTCATCAAAGCAGATC
1 AGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATC
5345044 CAGGATGATT
Statistics
Matches: 542, Mismatches: 75, Indels: 52
0.81 0.11 0.08
Matches are distributed among these distances:
291 6 0.01
292 6 0.01
293 2 0.00
294 15 0.03
296 1 0.00
297 12 0.02
298 10 0.02
299 444 0.82
300 6 0.01
301 12 0.02
302 1 0.00
304 13 0.02
305 2 0.00
306 6 0.01
307 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (297 bp):
AGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATCAAAGATGACAGATCTTATCT
CTCTGTAATGGGCGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
AGATCGAAGACATAGTAGATCTGACCTTCATCGGGCAGATCCAAGATGACAGATCTTATCTCTCT
GTAATGGACGGGGAGTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAGAT
CCAAGATGACAGATCTTATCTCTCTGTATTCGACGGG
Found at i:5344769 original size:172 final size:172
Alignment explanation
Indices: 5344577--5345051 Score: 691
Period size: 172 Copynumber: 2.8 Consensus size: 172
5344567 CAGATCTAAG
* *
5344577 ATGACAGATCTTATCTCTCTGTAATAGG-CGGGGAGTAGATCCAAGATGGCAGATCTTATCTCTC
1 ATGACAGATCTTATCTCTCTGTAAT-GGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTC
* * *
5344641 TGTATTCGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGCAGATCCAAGAT
65 TGTATTCGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATCGGGGCAGATCCAGGAT
*
5344706 GACAGATCTTATCTCTCCGTAATAGACGGTGAGTAGATAAAAA
130 GACAGATCTTATCTCTCCGTAATAGACGGGGAGTAGATAAAAA
* * *
5344749 ATGACAGATCTTATCTCTCTGTAATGGACAGAAAGTAGATCTAAGATGACAGATCTTATCTCTCT
1 ATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCT
* * * *
5344814 GTATTCGACGGGGAGCAGATCGAAAACGTAGTAGCTCTGACCTTCATCGGGACAGATCCAGGATG
66 GTATTCGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATCGGGGCAGATCCAGGATG
* * * * * ** *
5344879 GCGGATCTTATCTCTCTGTAATGGACGGGGAGTAGTTCCAAG
131 ACAGATCTTATCTCTCCGTAATAGACGGGGAGTAGATAAAAA
5344921 ATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCT
1 ATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCT
* * * ***
5344986 GTATTCGACGGGGAGCAGATCAAAAACATAACAGATCTGACTTTCATCAAAGCAGATCCAGGATG
66 GTATTCGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATCGGGGCAGATCCAGGATG
5345051 A
131 A
5345052 TTTTACATCT
Statistics
Matches: 267, Mismatches: 35, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
171 2 0.01
172 265 0.99
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (172 bp):
ATGACAGATCTTATCTCTCTGTAATGGACGGAGAGTAGATCCAAGATGACAGATCTTATCTCTCT
GTATTCGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATCGGGGCAGATCCAGGATG
ACAGATCTTATCTCTCCGTAATAGACGGGGAGTAGATAAAAA
Found at i:5344789 original size:127 final size:127
Alignment explanation
Indices: 5344314--5344771 Score: 754
Period size: 127 Copynumber: 3.6 Consensus size: 127
5344304 GACGGGGAGT
* *
5344314 AGATCAAAGATAACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
1 AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
* *
5344379 TATCTCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGC
66 TATCTCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
*
5344441 AGATCAAAGATGACAGATCTTATCTCTCTGTAATGGGCGGGGAGTAGATCCAAGATGACAGATCT
1 AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
** * *
5344506 TATCTCTCTGTATTCGATGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATCAGGGC
66 TATCTCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
* *
5344568 AGATCTAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGGCAGATCT
1 AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
5344633 TATCTCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
66 TATCTCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
* * * * ** *
5344695 AGATCCAAGATGACAGATCTTATCTCTCCGTAATAGACGGTGAGTAGATAAAAAATGACAGATCT
1 AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
5344760 TATCTCTCTGTA
66 TATCTCTCTGTA
5344772 ATGGACAGAA
Statistics
Matches: 309, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 309 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (127 bp):
AGATCAAAGATGACAGATCTTATCTCTCTGTAATAGGCGGGGAGTAGATCCAAGATGACAGATCT
TATCTCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATCGGGGC
Found at i:5345023 original size:47 final size:45
Alignment explanation
Indices: 5344867--5345006 Score: 208
Period size: 45 Copynumber: 3.1 Consensus size: 45
5344857 TCATCGGGAC
* * *
5344867 AGATCCAGGATGGCGGATCTTATCTCTCTGTAATGGACGGGGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* *
5344912 AGTTCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGAGAGT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
* * *
5344957 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGC
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
5345002 AGATC
1 AGATC
5345007 AAAAACATAA
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (45 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGT
Found at i:5346553 original size:21 final size:19
Alignment explanation
Indices: 5346517--5346555 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
5346507 CTTTTTATAT
5346517 TTTAATTTTCTTTAAATAC
1 TTTAATTTTCTTTAAATAC
*
5346536 TTTATATTTTTTTATAAATA
1 TTTA-ATTTTCTT-TAAATA
5346556 TTAGTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAATTTTCTTTAAATAC
Found at i:5346645 original size:12 final size:12
Alignment explanation
Indices: 5346630--5346655 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5346620 TATATTTTAT
5346630 TTTATATATTTC
1 TTTATATATTTC
5346642 TTTATATATTTC
1 TTTATATATTTC
5346654 TT
1 TT
5346656 ATAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATATATTTC
Found at i:5349025 original size:20 final size:21
Alignment explanation
Indices: 5349000--5349046 Score: 80
Period size: 19 Copynumber: 2.3 Consensus size: 21
5348990 GTTAATTTTC
5349000 AAAAATTATAAAAAAAATC-T
1 AAAAATTATAAAAAAAATCTT
5349020 AAAAA-TATAAAAAAAATCTT
1 AAAAATTATAAAAAAAATCTT
5349040 AAAAATT
1 AAAAATT
5349047 TTGAAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.52
20 11 0.44
21 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATTATAAAAAAAATCTT
Found at i:5354860 original size:22 final size:22
Alignment explanation
Indices: 5354829--5354887 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
5354819 TTTCTTTTTA
*
5354829 AAAAAAATAT-TAATACAATAT
1 AAAATAATATATAATACAATAT
* *
5354850 -AAATAATATATAATGCCATAT
1 AAAATAATATATAATACAATAT
5354871 AAAATAATATAATAATA
1 AAAATAATAT-ATAATA
5354888 TATGATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 8 0.26
21 9 0.29
22 9 0.29
23 5 0.16
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATAATATATAATACAATAT
Found at i:5360298 original size:11 final size:11
Alignment explanation
Indices: 5360274--5360318 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
5360264 TTCTAATACG
*
5360274 TATATATATAT
1 TATATATATTT
*
5360285 TATATGTATTT
1 TATATATATTT
*
5360296 TATATATATTA
1 TATATATATTT
*
5360307 TGTATATATTT
1 TATATATATTT
5360318 T
1 T
5360319 TTTATTGCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:5360705 original size:19 final size:19
Alignment explanation
Indices: 5360618--5360705 Score: 54
Period size: 19 Copynumber: 4.3 Consensus size: 19
5360608 TAATATTTTC
* *
5360618 TTTTATTGTAGATATTATTC
1 TTTTA-TGTACATATTATTA
5360638 TTATTAT-TACATACTT-TTA
1 TT-TTATGTACATA-TTATTA
* *
5360657 TTATATGCACATATATATATGTA
1 TTTTATGTAC--ATAT-TAT-TA
5360680 TTTTTATGTACATATTATTA
1 -TTTTATGTACATATTATTA
5360700 TTTTAT
1 TTTTAT
5360706 ATTATTATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 19
0.68 0.08 0.24
Matches are distributed among these distances:
18 3 0.06
19 17 0.32
20 8 0.15
21 10 0.19
22 5 0.09
23 2 0.04
24 8 0.15
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTTATGTACATATTATTA
Found at i:5372805 original size:72 final size:72
Alignment explanation
Indices: 5372553--5373513 Score: 1070
Period size: 72 Copynumber: 13.0 Consensus size: 72
5372543 CCGTTTTCAA
* ** ** * * * * *
5372553 AAAAATCAACTCATATTGTAAGAGGTGAGTTGAACCTCAAG--TCGTTGAGGTGTTTTCAATTTA
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
5372616 T-TTTTC
66 TGTTTTC
* ** *
5372622 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA-TT-
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
5372685 TGTCTTTC
66 TGT-TTTC
* *
5372693 AAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
1 ------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
5372758 AATTTCTGTTTTC
60 AATTTCTGTTTTC
*
5372771 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
5372836 TGTTTTTC
66 TG-TTTTC
* ** ** *
5372844 AAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTC
1 ------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
5372909 AATTTCTGTTTTC
60 AATTTCTGTTTTC
* * *
5372922 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
5372987 TGTTTTC
66 TGTTTTC
* * ** * *
5372994 AAAAATCAACTCTTATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAAT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAAT
5373058 TTCTGTGTTTC
63 TTCTGT-TTTC
* * *
5373069 AAAAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTTGAGGTAATTTCAA
1 ---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-CTGAGGTATTTTCAA
*
5373134 TTTCTATTTTC
62 TTTCTGTTTTC
* * *
5373145 AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
5373210 TATTTTC
66 TGTTTTC
* * *
5373217 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
5373282 TGTTTTC
66 TGTTTTC
*
5373289 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
5373354 TGTTTTTTTTTC
66 TG-----TTTTC
* ** ** *
5373366 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGGACACGCTGAGGTAATTTCAATT
1 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATT
*
5373431 TCTGTTGTC
64 TCTGTTTTC
* * ** * *
5373440 AAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
1 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAAT
*
5373505 TTCCGTTTT
63 TTCTGTTTT
5373514 TCAATTTCTG
Statistics
Matches: 783, Mismatches: 72, Indels: 68
0.85 0.08 0.07
Matches are distributed among these distances:
69 39 0.05
70 3 0.00
71 19 0.02
72 318 0.41
73 91 0.12
74 28 0.04
75 30 0.04
76 8 0.01
77 79 0.10
78 44 0.06
79 124 0.16
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTTC
Found at i:5372919 original size:151 final size:145
Alignment explanation
Indices: 5372545--5373513 Score: 1119
Period size: 151 Copynumber: 6.5 Consensus size: 145
5372535 TGTTACTTCC
** * * * *
5372545 GTTTTCAAAAAAATCAACTCATATTGTAAGAGGTGAGTTGAACCTCAAG--TCGTTGAGGTGTTT
1 GTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTT
* * ** *
5372608 TCAATTTAT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGA
65 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGA
*
5372672 GGTATTTTCAA-TT-T
130 GGTAATTTCAATTTCT
** *
5372686 GTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 GT-TTTC----AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
* *
5372751 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAT
60 TATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
5372816 GCTGAGGTATTTTCAATTTCT
125 GCTGAGGTAATTTCAATTTCT
**
5372837 GTTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
1 G-TTTTC-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
* *
5372902 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACAC
60 TATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
* * *
5372967 GTTAAGGTATTTTCAATTTCT
125 GCTGAGGTAATTTCAATTTCT
* * *
5372988 GTTTTC-AAAAATCAACTCTTATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTAT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTAT
*
5373051 TTTCAATTTCTGTGTTTCAAAAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACA
63 TTTCAATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
5373116 CGTTTGAGGTAATTTCAATTTCT
124 CG-CTGAGGTAATTTCAATTTCT
* * * ** * *
5373139 ATTTTC-AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
* * *
5373203 CAATTTCTATTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
66 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
5373268 GTAATTTCAATTTCT
131 GTAATTTCAATTTCT
* ** *
5373283 GTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
* ** **
5373347 CAATTTCTGTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGGACA
66 CAATTTCTG-----TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
5373412 CGCTGAGGTAATTTCAATTTCT
124 CGCTGAGGTAATTTCAATTTCT
* * * *
5373434 GTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGCTGAGGTATT
*
5373499 TTCAATTTCCGTTTT
64 TTCAATTTCTGTTTT
5373514 TCAATTTCTG
Statistics
Matches: 734, Mismatches: 63, Indels: 54
0.86 0.07 0.06
Matches are distributed among these distances:
141 2 0.00
142 4 0.01
143 2 0.00
144 124 0.17
145 51 0.07
146 56 0.08
147 4 0.01
148 23 0.03
149 95 0.13
150 51 0.07
151 251 0.34
152 48 0.07
154 23 0.03
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (145 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
GTAATTTCAATTTCT
Found at i:5372985 original size:223 final size:222
Alignment explanation
Indices: 5372553--5373517 Score: 1140
Period size: 223 Copynumber: 4.3 Consensus size: 222
5372543 CCGTTTTCAA
** ** * * *
5372553 AAAAATCAACTCATATTGTAAGAGGTGAGTTGAACCTCAAGT---CGTTGAGGTGTTTTCAA-TT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAATTT
* *
5372614 -TATTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGT
66 CTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT
5372675 ATTTTCAA-TT-TGTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
131 ATTTTCAATTTCTGT-TTTC-----AAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
5372738 AGACACGTTGAGGTAATTTCAATTTCTGTTTTC
190 AGACACGTTGAGGTAATTTCAATTTCTGTTTTC
* *
5372771 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACATGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAATTT
**
5372835 CTGTTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
66 CTGTTTTTC---AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
* *
5372900 GGTAATTTCAATTTCTGTTTTC-AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGA
128 GGTATTTTCAATTTCTGTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
* *
5372964 CACGTTAAGGTATTTTCAATTTCTGTTTTC
193 CACGTTGAGGTAATTTCAATTTCTGTTTTC
* ** * *
5372994 AAAAATCAACTCTTATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-T-ACACGCTGAGGTATTTTCAAT
* * * ** *
5373058 TTCTGTGTTTCAAAAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTTGA
64 TTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG-CTGA
* * *
5373123 GGTAATTTCAATTTCTATTTTC-AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGA
128 GGTATTTTCAATTTCTGTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
*
5373187 CACGTTGAGGTAATTTCAATTTCTATTTTC
193 CACGTTGAGGTAATTTCAATTTCTGTTTTC
* * * *
5373217 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACGTTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAATTT
* ** *
5373281 CTG-TTTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
66 CTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT
* ** *
5373342 ATTTTCAATTTCTGTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCC
131 ATTTTCAATTTCTG-----TTTTC-AAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * *
5373407 GGACACGCTGAGGTAATTTCAATTTCTGTTGTC
190 AGACACGTTGAGGTAATTTCAATTTCTGTTTTC
* ** * *
5373440 AAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
1 -AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGT-ACACGCTGAGGTATTTTCAAT
*
5373505 TTCCGTTTTTCAA
64 TTCTGTTTTTCAA
5373518 TTTCTGCCTT
Statistics
Matches: 646, Mismatches: 70, Indels: 51
0.84 0.09 0.07
Matches are distributed among these distances:
216 18 0.03
217 44 0.07
218 35 0.05
220 18 0.03
221 30 0.05
222 51 0.08
223 290 0.45
224 36 0.06
225 31 0.05
226 22 0.03
227 5 0.01
228 57 0.09
229 6 0.01
230 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (222 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAATTT
CTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT
ATTTTCAATTTCTGTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
GTTGAGGTAATTTCAATTTCTGTTTTC
Found at i:5373514 original size:151 final size:147
Alignment explanation
Indices: 5372545--5373723 Score: 1089
Period size: 151 Copynumber: 7.8 Consensus size: 147
5372535 TGTTACTTCC
** * ** * *
5372545 GTTTTCAAAAAAATCAACTCATATTGTAAGAGGTGAGTTGAACCTCA--AGTCGTTGAGGTGTTT
1 GTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
* ** *
5372608 TCAATTT-ATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCT
65 TCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
5372670 GAGGTATTTTCAA-TT-T
130 GAGGTATTTTCAATTTCT
** * *
5372686 GTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 GT-TTTC----AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* * *
5372751 TAATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
60 TATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
*
5372814 ATGCTGAGGTATTTTCAATTTCT
125 ACGCTGAGGTATTTTCAATTTCT
*
5372837 GTTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
1 G-TTTTC-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* * * *
5372902 TAATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGAC
60 TATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
* *
5372965 ACGTTAAGGTATTTTCAATTTCT
125 ACGCTGAGGTATTTTCAATTTCT
* *
5372988 GTTTTC-AAAAATCAACTCTTATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTAT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAT
* *
5373051 TTTCAATTTCTGTGTTTCAAAAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACA
63 TTTCAATTTCT-TTTTTCAAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* *
5373116 CGTTTGAGGTAATTTCAATTTCT
126 CG-CTGAGGTATTTTCAATTTCT
* * * ** * * *
5373139 ATTTTC-AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
* * * *
5373203 CAATTTCTATTTTC--AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
66 CAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
*
5373266 AGGTAATTTCAATTTCT
131 AGGTATTTTCAATTTCT
* ** * *
5373283 GTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
** **
5373347 CAATTTCTGTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGGACA
66 CAATTTC-----TTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
5373412 CGCTGAGGTAATTTCAATTTCT
126 CGCTGAGGTATTTTCAATTTCT
* * *
5373434 GTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATT
* **
5373499 TTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGT
64 TTCAA--------TTTC---TT-T---TTTC--AAAAAAATCAACTCATATTGCGAGAAATGAGT
** * *
5373564 TGAGCCT-TGGCTCACGCGTTGAGCTATTTTCAATTTCT
112 TGAGCCTCAAG-ACACGC--TGAGGTATTTTCAATTTCT
* * * * *
5373602 GTCTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCTTCAGATCACACACTGAGGTA
1 GT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA
* * **
5373667 TTTTTTCAATTTATATTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
62 --TTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
5373724 TTTTTTAATT
Statistics
Matches: 896, Mismatches: 87, Indels: 95
0.83 0.08 0.09
Matches are distributed among these distances:
141 2 0.00
142 4 0.00
143 2 0.00
144 123 0.14
145 46 0.05
146 56 0.06
147 4 0.00
148 23 0.03
149 95 0.11
150 46 0.05
151 251 0.28
152 48 0.05
154 18 0.02
156 34 0.04
158 4 0.00
160 3 0.00
161 3 0.00
162 5 0.01
164 7 0.01
165 2 0.00
166 43 0.05
168 19 0.02
169 3 0.00
170 48 0.05
172 7 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (147 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
CAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
AGGTATTTTCAATTTCT
Found at i:5373592 original size:93 final size:93
Alignment explanation
Indices: 5373440--5373610 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
5373430 TTCTGTTGTC
* *
5373440 AAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
*
5373505 TTCCGTTTTTCAATTTCTGCCTTTCAAA
66 TTCCGTCTTTCAATTTCTGCCTTTCAAA
* * * **
5373533 AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGTTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCAA
*
5373597 TTTCTGTCTTTCAA
65 TTTCCGTCTTTCAA
5373611 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (93 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
TTCCGTCTTTCAATTTCTGCCTTTCAAA
Found at i:5373669 original size:77 final size:78
Alignment explanation
Indices: 5373510--5373723 Score: 252
Period size: 79 Copynumber: 2.7 Consensus size: 78
5373500 TCAATTTCCG
* * * *
5373510 TTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGA
* **
5373575 TCACGCGTTGAGCTA
64 TCACACACTGAGCTA
* *
5373590 -TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAG-CTTCAGAT
1 TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGAT
*
5373653 CACACACTGAGGTA
65 CACACACTGAGCTA
* * * *
5373667 TTTTTTCAATTTATATTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 -TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
5373724 TTTTTTAATT
Statistics
Matches: 115, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
76 3 0.03
77 45 0.39
79 67 0.58
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (78 bp):
TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATC
ACACACTGAGCTA
Found at i:5373745 original size:30 final size:30
Alignment explanation
Indices: 5373706--5373784 Score: 131
Period size: 30 Copynumber: 2.6 Consensus size: 30
5373696 TAACTCATAT
*
5373706 TGCGAGAGGTGAGTTGAGTTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCTTTTTAATTTC
*
5373736 TGTGAGAGGTGAGTTGAGCTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCTTTTTAATTTC
*
5373766 TGCGAAAGGTGAGTTGAGC
1 TGCGAGAGGTGAGTTGAGC
5373785 CTCGAGTCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.22, C:0.08, G:0.33, T:0.38
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGCTTTTTAATTTC
Done.