Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 19 of 54
Found at i:8450245 original size:170 final size:170
Alignment explanation
Indices: 8450001--8450355 Score: 446
Period size: 170 Copynumber: 2.1 Consensus size: 170
8449991 CCCATCTCGG
* * * * *
8450001 CATCTAATTATGAGTCCGGATACGGTTTTTGAATTCTAACATTATTAGTTAATCGTGTTACACTT
1 CATCTAATCATGAGTCCGGATACGCTTTTTGAATTCTAACATAATTAGTTAATCGTATTACACTC
* * * * * * *
8450066 GTATTTATTCATATAATTATTAATATTATATGTTTATATAATACGATT-AAGATAGTGATAACAC
66 GTATTTATTCATATAACTATTAATATTATATATTTATACAACACAATTGAA-ATAATAATAACAC
* *
8450130 AAAATAAAATTGAACAATACAAAGAAACTTACACATCTAAC
130 AAAATAAAACTAAACAATACAAAGAAACTTACACATCTAAC
* * **
8450171 TATCTAATCATGAGTCCGTG-TAC-CTTTTTCGAATTCTGACATAATTAGTTAATCGTATTATGC
1 CATCTAATCATGAGTCCG-GATACGCTTTTT-GAATTCTAACATAATTAGTTAATCGTATTACAC
8450234 TCGTATTTATTCATATAACTATTAATATTATATATTTATACAACACAATTGAAATAATAATAACA
64 TCGTATTTATTCATATAACTATTAATATTATATATTTATACAACACAATTGAAATAATAATAACA
* * * * * *
8450299 TAAAGTAAAACTAAACAATACAATGAGACTTACCCATCTAGC
129 CAAAATAAAACTAAACAATACAAAGAAACTTACACATCTAAC
8450341 CATCTAATCATGAGT
1 CATCTAATCATGAGT
8450356 TCGACATTCT
Statistics
Matches: 157, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
169 5 0.03
170 149 0.95
171 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (170 bp):
CATCTAATCATGAGTCCGGATACGCTTTTTGAATTCTAACATAATTAGTTAATCGTATTACACTC
GTATTTATTCATATAACTATTAATATTATATATTTATACAACACAATTGAAATAATAATAACACA
AAATAAAACTAAACAATACAAAGAAACTTACACATCTAAC
Found at i:8455052 original size:84 final size:84
Alignment explanation
Indices: 8454942--8455111 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 84
8454932 TCAAGCACCA
*
8454942 GGGTTAGGATTGTTCTGCATTGCTTTTACTTTTACTTACTTGTATGTTGTATCTTATTAATCTCA
1 GGGTTAGGATTGTTCTGCACTGCTTTTACTTTTACTTACTTGTATGTTGTATCTTATTAATCTCA
8455007 ATTCTACTCAACTCATATG
66 ATTCTACTCAACTCATATG
8455026 GGGTTAGGATTGTTCTGCACTGCTTTTACTTTTACTTACTTGTATGTTGTATCTTATTAATCTCA
1 GGGTTAGGATTGTTCTGCACTGCTTTTACTTTTACTTACTTGTATGTTGTATCTTATTAATCTCA
8455091 ATTCTACTCAACTCATATG
66 ATTCTACTCAACTCATATG
8455110 GG
1 GG
8455112 AATTTTGATT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.46
Consensus pattern (84 bp):
GGGTTAGGATTGTTCTGCACTGCTTTTACTTTTACTTACTTGTATGTTGTATCTTATTAATCTCA
ATTCTACTCAACTCATATG
Found at i:8460633 original size:38 final size:38
Alignment explanation
Indices: 8460591--8460668 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
8460581 GTGAGATACA
*
8460591 ATATGATACAGGGTGTGTTTCTGTCATGATATATATGC
1 ATATGATACAGGGTGTGTTTCTGTCATCATATATATGC
8460629 ATATGATACAGGGTGTGTTTCTGTCATCATATATATGC
1 ATATGATACAGGGTGTGTTTCTGTCATCATATATATGC
8460667 AT
1 AT
8460669 TATTATGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.40
Consensus pattern (38 bp):
ATATGATACAGGGTGTGTTTCTGTCATCATATATATGC
Found at i:8468486 original size:37 final size:37
Alignment explanation
Indices: 8468426--8468498 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
8468416 TCTCCTCCAT
*
8468426 CAGCCGCCCTTCCCTCGTGTTCATCTCCTCTCTCAGC
1 CAGCCGCCCTTCCCTCGTCTTCATCTCCTCTCTCAGC
*
8468463 CAGCCGTCCTT-CCTCCGTCTTCATCTCCTCTCTCAG
1 CAGCCGCCCTTCCCT-CGTCTTCATCTCCTCTCTCAG
8468499 TTGGTCGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.08, C:0.48, G:0.12, T:0.32
Consensus pattern (37 bp):
CAGCCGCCCTTCCCTCGTCTTCATCTCCTCTCTCAGC
Found at i:8468928 original size:16 final size:18
Alignment explanation
Indices: 8468884--8468929 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
8468874 GTTCGAAGAG
* *
8468884 AAAAAGGAAAGATGAGAA
1 AAAAATGAAAAATGAGAA
8468902 AAAAATGAAAAATGA-AA
1 AAAAATGAAAAATGAGAA
8468919 AAAAAT-AAAAA
1 AAAAATGAAAAA
8468930 AAAATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 5 0.19
17 8 0.31
18 13 0.50
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (18 bp):
AAAAATGAAAAATGAGAA
Found at i:8468931 original size:18 final size:18
Alignment explanation
Indices: 8468895--8468930 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8468885 AAAAGGAAAG
*
8468895 ATGAGAAAAAAATGAAAA
1 ATGAGAAAAAAATAAAAA
8468913 ATGA-AAAAAAATAAAAA
1 ATGAGAAAAAAATAAAAA
8468930 A
1 A
8468931 AAATTATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
ATGAGAAAAAAATAAAAA
Found at i:8469134 original size:12 final size:11
Alignment explanation
Indices: 8469114--8469191 Score: 56
Period size: 11 Copynumber: 7.3 Consensus size: 11
8469104 TACAACTAAT
8469114 TTAATAATAAA
1 TTAATAATAAA
* *
8469125 TTATTCAATAAT
1 TTAAT-AATAAA
8469137 TTAATAATAAA
1 TTAATAATAAA
*
8469148 TTAA-AA-ATA
1 TTAATAATAAA
**
8469157 TTAATAATTTA
1 TTAATAATAAA
*
8469168 TGT--TAATAAT
1 T-TAATAATAAA
8469178 TTAATAATAAA
1 TTAATAATAAA
8469189 TTA
1 TTA
8469192 TTGATATATA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 7 0.14
10 9 0.18
11 25 0.49
12 10 0.20
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (11 bp):
TTAATAATAAA
Found at i:8469143 original size:20 final size:19
Alignment explanation
Indices: 8469118--8469184 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 19
8469108 ACTAATTTAA
8469118 TAATAAATTATTCAATAATT
1 TAATAAATTATT-AATAATT
* *
8469138 TAAT-AATAAATTAAAAATAT
1 TAATAAAT-TATTAATAAT-T
*
8469158 TAATAATTTATGTTAATAATT
1 TAATAAATTA--TTAATAATT
8469179 TAATAA
1 TAATAA
8469185 TAAATTATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
19 8 0.22
20 13 0.35
21 9 0.24
22 7 0.19
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (19 bp):
TAATAAATTATTAATAATT
Found at i:8469497 original size:85 final size:86
Alignment explanation
Indices: 8469408--8469578 Score: 206
Period size: 85 Copynumber: 2.0 Consensus size: 86
8469398 TAAAAGGGTT
* * * *
8469408 TATGAATTTGC-ATTTAATCTATCTAAAGACATAATTTAC-ATTTTTTTTAGGAAAAAATTG-AA
1 TATG-ATTTGCTATTTAATATATCCAAAGACATAACTTACTATTTTTTTTA--AAAAAAATGAAA
*
8469470 GG-CCATCTTTTTATTTTCAAAGA
63 GGACCATCTTTTTAATTTCAAAGA
* * *
8469493 TATGATTTTCTATTTTATATATCCAAAGACATAACTTACTTTTTTTTTTAAAAAAAATGAAAGGA
1 TATGATTTGCTATTTAATATATCCAAAGACATAACTTACTATTTTTTTTAAAAAAAATGAAAGGA
*
8469558 CTATCTTTTTAATTTCAAAGA
66 CCATCTTTTTAATTTCAAAGA
8469579 CAAGCATCTA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
84 13 0.18
85 32 0.44
86 28 0.38
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (86 bp):
TATGATTTGCTATTTAATATATCCAAAGACATAACTTACTATTTTTTTTAAAAAAAATGAAAGGA
CCATCTTTTTAATTTCAAAGA
Found at i:8469599 original size:86 final size:82
Alignment explanation
Indices: 8469427--8469598 Score: 186
Period size: 86 Copynumber: 2.0 Consensus size: 82
8469417 GCATTTAATC
* * * *
8469427 TATCTAAAGACATAATTTACATTTTTTTTAGGAAAAAATTGAAGGCCATCTTTTTATTTTCAAAG
1 TATCCAAAGACATAACTTACATTTTTTTTA-GAAAAAAATGAAGGCCATCTTTTTAATTTCAAAG
* *
8469492 ATATGATTTTCTATTTTATA
65 ACAAGA--TTCTATTTTATA
* *
8469512 TATCCAAAGACATAACTTACTTTTTTTTTTA-AAAAAAATGAAAGGACTATCTTTTTAATTTCAA
1 TATCCAAAGACATAACTTAC-ATTTTTTTTAGAAAAAAATG-AAGG-CCATCTTTTTAATTTCAA
*
8469576 AGACAAGCA-TCTATTTAATA
63 AGACAAG-ATTCTATTTTATA
8469596 TAT
1 TAT
8469599 AAAAAAAAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
84 21 0.28
85 22 0.30
86 30 0.41
87 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.42
Consensus pattern (82 bp):
TATCCAAAGACATAACTTACATTTTTTTTAGAAAAAAATGAAGGCCATCTTTTTAATTTCAAAGA
CAAGATTCTATTTTATA
Found at i:8473888 original size:30 final size:30
Alignment explanation
Indices: 8473824--8473881 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8473814 AATCAAACTC
* *
8473824 TTATACTTTTATTTTAAACCAAGTACGTAG
1 TTATACTTTTATTTTAAACCAAATAAGTAG
* *
8473854 TTATATTTTTATTTTGAACCAAATAAGT
1 TTATACTTTTATTTTAAACCAAATAAGT
8473882 TTTTATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (30 bp):
TTATACTTTTATTTTAAACCAAATAAGTAG
Found at i:8474447 original size:24 final size:24
Alignment explanation
Indices: 8474413--8474462 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
8474403 TTAGCGTGTT
* *
8474413 ACACGCTATGTATAAAAATCTGTG
1 ACACGCCATGTACAAAAATCTGTG
*
8474437 ACACGCCATGTACAAAAATTTGTG
1 ACACGCCATGTACAAAAATCTGTG
8474461 AC
1 AC
8474463 CAGCTATGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (24 bp):
ACACGCCATGTACAAAAATCTGTG
Found at i:8474480 original size:69 final size:69
Alignment explanation
Indices: 8474363--8474520 Score: 194
Period size: 69 Copynumber: 2.3 Consensus size: 69
8474353 ACACGCTATG
* * * * * *
8474363 ATGTTACACGCCATGTATAAAAATCTGTGACAAGTCCTGGTTAGCGTGTTACACGCTATGTATAA
1 ATGTGACACGCCATGTACAAAAATCTGTGACAAGTCATGGTTAACGTGTGACACGCTATGTACAA
8474428 AAATC
66 AAA-C
* *
8474433 -TGTGACACGCCATGTACAAAAATTTGTGACCAG-CTATGGTTAACGTGTGACACGCTATGTACA
1 ATGTGACACGCCATGTACAAAAATCTGTGACAAGTC-ATGGTTAACGTGTGACACGCTATGTACA
8474496 AAAAC
65 AAAAC
* *
8474501 ATGTGACATGTCATGTACAA
1 ATGTGACACGCCATGTACAA
8474521 CGTGTTACAC
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
68 2 0.03
69 74 0.97
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (69 bp):
ATGTGACACGCCATGTACAAAAATCTGTGACAAGTCATGGTTAACGTGTGACACGCTATGTACAA
AAAC
Found at i:8474482 original size:45 final size:45
Alignment explanation
Indices: 8474433--8474643 Score: 235
Period size: 45 Copynumber: 4.7 Consensus size: 45
8474423 TATAAAAATC
* * *
8474433 TGTGACACGCCATGTACAAAAATTTGTGACCAGCTATGGTTAACG
1 TGTGACACGCCATGTACAAAAACTTGTGACAAGCCATGGTTAACG
* * * * *
8474478 TGTGACACGCTATGTACAAAAACATGTGACATGTCAT-GTACAACG
1 TGTGACACGCCATGTACAAAAACTTGTGACAAGCCATGGT-TAACG
* * * * * *
8474523 TGTTACACGTCATGTACAAAAACCTGTGATAAGCCATGGTTAGCA
1 TGTGACACGCCATGTACAAAAACTTGTGACAAGCCATGGTTAACG
* * *
8474568 TGTGACACGCCATATACAAAAGCTTGTGACAAGCCATGGTTAGCG
1 TGTGACACGCCATGTACAAAAACTTGTGACAAGCCATGGTTAACG
* *
8474613 TGTGACATGCCATGTACAAAAACCTGTGACA
1 TGTGACACGCCATGTACAAAAACTTGTGACA
8474644 CGTCATATAC
Statistics
Matches: 135, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
44 2 0.01
45 131 0.97
46 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (45 bp):
TGTGACACGCCATGTACAAAAACTTGTGACAAGCCATGGTTAACG
Found at i:8474507 original size:24 final size:23
Alignment explanation
Indices: 8474413--8474508 Score: 67
Period size: 24 Copynumber: 4.1 Consensus size: 23
8474403 TTAGCGTGTT
*
8474413 ACACGCTATGTATAAAAATCTGTG
1 ACACGCTATGTACAAAAA-CTGTG
* *
8474437 ACACGCCATGTACAAAAATTTGTG
1 ACACGCTATGTACAAAAA-CTGTG
*
8474461 AC-CAGCTATGGT----TAACGTGTG
1 ACAC-GCTAT-GTACAAAAAC-TGTG
8474482 ACACGCTATGTACAAAAACATGTG
1 ACACGCTATGTACAAAAAC-TGTG
8474506 ACA
1 ACA
8474509 TGTCATGTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
20 2 0.04
21 13 0.23
22 1 0.02
23 1 0.02
24 37 0.66
25 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (23 bp):
ACACGCTATGTACAAAAACTGTG
Found at i:8474642 original size:24 final size:24
Alignment explanation
Indices: 8474613--8474665 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
8474603 ATGGTTAGCG
* *
8474613 TGTGACATGCCATGTACAAAAACC
1 TGTGACACGCCATATACAAAAACC
*
8474637 TGTGACACGTCATATACAAAAACC
1 TGTGACACGCCATATACAAAAACC
8474661 TGTGA
1 TGTGA
8474666 AACTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (24 bp):
TGTGACACGCCATATACAAAAACC
Found at i:8475014 original size:23 final size:23
Alignment explanation
Indices: 8474987--8475036 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
8474977 CTTGGTGTCT
8474987 TGAAAACGTGAGAGAGAGAAATC
1 TGAAAACGTGAGAGAGAGAAATC
8475010 TGAAAACGTGAGAGAGAGAAATC
1 TGAAAACGTGAGAGAGAGAAATC
8475033 -GAAA
1 TGAAA
8475037 GTACAGCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.50, C:0.08, G:0.30, T:0.12
Consensus pattern (23 bp):
TGAAAACGTGAGAGAGAGAAATC
Found at i:8485646 original size:30 final size:30
Alignment explanation
Indices: 8485612--8485669 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
8485602 GCTCTTATAC
*
8485612 TTTTATTTTAAGTCAAATACGTTTTTATTT
1 TTTTATTTTAAGTCAAATAAGTTTTTATTT
*
8485642 TTTTATTTTGAGTCAAATAAGTTTTTAT
1 TTTTATTTTAAGTCAAATAAGTTTTTAT
8485670 AATTAATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.59
Consensus pattern (30 bp):
TTTTATTTTAAGTCAAATAAGTTTTTATTT
Found at i:8493791 original size:17 final size:17
Alignment explanation
Indices: 8493765--8493801 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8493755 CTATATATCG
8493765 ATTTAATAATTTTATTA
1 ATTTAATAATTTTATTA
* *
8493782 ATTTACTAATTTTCTTA
1 ATTTAATAATTTTATTA
8493799 ATT
1 ATT
8493802 ATACCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTAATAATTTTATTA
Found at i:8498327 original size:37 final size:37
Alignment explanation
Indices: 8498286--8498399 Score: 107
Period size: 37 Copynumber: 3.2 Consensus size: 37
8498276 TGGTTTTTCC
8498286 TTTTCCTCATTCATAGAAAATATATTATTAATATTTA
1 TTTTCCTCATTCATAGAAAATATATTATTAATATTTA
* * *
8498323 TTTTCCTC-TTTATTTTG-AAAT-TATT-TT--T-TTTCC
1 TTTTCCTCATTCA--TAGAAAATATATTATTAATATTT-A
*
8498356 TTTTCCTCATTCATATAAAATATATTATTAATATTTA
1 TTTTCCTCATTCATAGAAAATATATTATTAATATTTA
*
8498393 CTTTCCT
1 TTTTCCT
8498400 TTTAGGATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
32 4 0.07
33 13 0.22
34 7 0.12
35 4 0.07
36 7 0.12
37 19 0.32
38 5 0.08
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.55
Consensus pattern (37 bp):
TTTTCCTCATTCATAGAAAATATATTATTAATATTTA
Found at i:8498361 original size:70 final size:70
Alignment explanation
Indices: 8498261--8498403 Score: 225
Period size: 70 Copynumber: 2.0 Consensus size: 70
8498251 ATTTACCCCA
*
8498261 TTATCTTGAAATAATTGGTTTTTCCTTTTCCTCATTCATAGAAAATATATTATTAATATTTATTT
1 TTATCTTGAAATAATTGGTTTTTCCTTTTCCTCATTCATAGAAAATATATTATTAATATTTACTT
8498326 TCCTCT
66 TCCT-T
* * * *
8498332 TTATTTTGAAATTATT-TTTTTTCCTTTTCCTCATTCATATAAAATATATTATTAATATTTACTT
1 TTATCTTGAAATAATTGGTTTTTCCTTTTCCTCATTCATAGAAAATATATTATTAATATTTACTT
8498396 TCCTT
66 TCCTT
8498401 TTA
1 TTA
8498404 GGATTAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
69 4 0.06
70 49 0.73
71 14 0.21
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.55
Consensus pattern (70 bp):
TTATCTTGAAATAATTGGTTTTTCCTTTTCCTCATTCATAGAAAATATATTATTAATATTTACTT
TCCTT
Found at i:8499853 original size:3 final size:3
Alignment explanation
Indices: 8499845--8499871 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8499835 TATTCTCTCC
8499845 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
8499872 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8505184 original size:20 final size:20
Alignment explanation
Indices: 8505148--8505185 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8505138 TTTATAATTT
*
8505148 AATTATTTTTAATTAAAAAA
1 AATTATTTTGAATTAAAAAA
8505168 AATTAATTTTGAA-TAAAA
1 AATT-ATTTTGAATTAAAA
8505186 TTATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AATTATTTTGAATTAAAAAA
Found at i:8505197 original size:15 final size:16
Alignment explanation
Indices: 8505166--8505201 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
8505156 TTAATTAAAA
8505166 AAAATTAATTTTGAAT
1 AAAATTAATTTTGAAT
*
8505182 AAAATT-ATTTTTAAT
1 AAAATTAATTTTGAAT
8505197 AAAAT
1 AAAAT
8505202 CAATCTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AAAATTAATTTTGAAT
Found at i:8505583 original size:22 final size:22
Alignment explanation
Indices: 8505558--8505599 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8505548 ATTTTAAGTA
8505558 TTGTGTGATTGATTTTTAGATG
1 TTGTGTGATTGATTTTTAGATG
** *
8505580 TTGTGTTTTTTATTTTTAGA
1 TTGTGTGATTGATTTTTAGA
8505600 CATTACATGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (22 bp):
TTGTGTGATTGATTTTTAGATG
Found at i:8507711 original size:21 final size:21
Alignment explanation
Indices: 8507685--8507724 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
8507675 AACTCGTCTC
8507685 GAACGCCTCTTGAGGGAAAGA
1 GAACGCCTCTTGAGGGAAAGA
8507706 GAACGCCTCTTGAGGGAAA
1 GAACGCCTCTTGAGGGAAA
8507725 AAGAGCTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.15
Consensus pattern (21 bp):
GAACGCCTCTTGAGGGAAAGA
Found at i:8526095 original size:2 final size:2
Alignment explanation
Indices: 8526088--8526112 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8526078 CCATTTCATC
8526088 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8526113 AAAGAGATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8530156 original size:25 final size:26
Alignment explanation
Indices: 8530128--8530204 Score: 101
Period size: 25 Copynumber: 3.1 Consensus size: 26
8530118 TCCAATTTTT
8530128 AATAAAATATTAATA-TTAAATTATA
1 AATAAAATATTAATATTTAAATTATA
*
8530153 AATAAAATATTAATATTTAAATTATC
1 AATAAAATATTAATATTTAAATTATA
8530179 AAT----TATTAATATTTTAAATTATA
1 AATAAAATATTAATA-TTTAAATTATA
8530202 AAT
1 AAT
8530205 TATTCCTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.17
23 13 0.27
25 15 0.31
26 12 0.25
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (26 bp):
AATAAAATATTAATATTTAAATTATA
Found at i:8530198 original size:23 final size:22
Alignment explanation
Indices: 8530129--8530218 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 22
8530119 CCAATTTTTA
*
8530129 ATAAAATATTAATA-TTAAATT
1 ATAAATTATTAATATTTAAATT
8530150 ATAAATAAAATATTAATATTTAAATT
1 ATAAAT----TATTAATATTTAAATT
*
8530176 ATCAATTATTAATATTTTAAATT
1 ATAAATTATTAATA-TTTAAATT
**
8530199 ATAAATTATTCCTATTTAAA
1 ATAAATTATTAATATTTAAA
8530219 AACAAAATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.09
22 14 0.24
23 19 0.33
25 8 0.14
26 12 0.21
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAATTATTAATATTTAAATT
Found at i:8530673 original size:15 final size:15
Alignment explanation
Indices: 8530632--8530675 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
8530622 NNNAATTATT
*
8530632 AATTATTAATATTTT
1 AATTATTAATATTTA
8530647 AATTA--AAT-TTTA
1 AATTATTAATATTTA
8530659 AATTATTAATATTTA
1 AATTATTAATATTTA
8530674 AA
1 AA
8530676 AATCTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 8 0.32
13 3 0.12
14 3 0.12
15 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTATTAATATTTA
Found at i:8535775 original size:22 final size:23
Alignment explanation
Indices: 8535731--8535775 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8535721 TTTTAGGGGG
**
8535731 TTATTCTTTTTATAAGTTAATTA
1 TTATTCTTTAAATAAGTTAATTA
8535754 TTATTCTTTAAATAA-TTAATTA
1 TTATTCTTTAAATAAGTTAATTA
8535776 ACCAAGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTCTTTAAATAAGTTAATTA
Found at i:8536679 original size:19 final size:17
Alignment explanation
Indices: 8536627--8536700 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
8536617 TTAATAATAT
8536627 AAAAATAAAAAA-AATAA
1 AAAAATAAAAAATAA-AA
* * *
8536644 AAAAATCATAATTAAAA
1 AAAAATAAAAAATAAAA
*
8536661 AAAAGTCAAAAAATAAAA
1 AAAAAT-AAAAAATAAAA
*
8536679 ATATTAATAAAAAATAAAA
1 A-A-AAATAAAAAATAAAA
8536698 AAA
1 AAA
8536701 TGATGAATGA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
17 16 0.37
18 12 0.28
19 13 0.30
20 2 0.05
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (17 bp):
AAAAATAAAAAATAAAA
Found at i:8536909 original size:34 final size:34
Alignment explanation
Indices: 8536866--8536930 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
8536856 TGCTCAGAAG
*
8536866 AGCATGATTTCACCTCTGGATTGTCCAAATTCTA
1 AGCATGATTTCACCTCTAGATTGTCCAAATTCTA
8536900 AGCATGATTTCACCTCTAGATTGTCCAAATT
1 AGCATGATTTCACCTCTAGATTGTCCAAATT
8536931 TTTGGACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (34 bp):
AGCATGATTTCACCTCTAGATTGTCCAAATTCTA
Found at i:8538478 original size:11 final size:11
Alignment explanation
Indices: 8538441--8538491 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
8538431 TTTTAATTTT
8538441 AAAT-AAATGAA
1 AAATAAAAT-AA
*
8538452 AAATATAATAA
1 AAATAAAATAA
*
8538463 TAATAAAA-AA
1 AAATAAAATAA
8538473 ACAATAAAATAA
1 A-AATAAAATAA
8538485 AAATAAA
1 AAATAAA
8538492 CTTCAAAAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 2 0.06
11 25 0.76
12 6 0.18
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:8544364 original size:33 final size:33
Alignment explanation
Indices: 8544288--8544355 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
8544278 TCATATCAAA
*
8544288 TTAACATGTCACATTATCATCAATTATGATATG
1 TTAACATGTCACATTATCATCAATTATAATATG
8544321 TTAACATGTCACATTATCATCAATTATAATATG
1 TTAACATGTCACATTATCATCAATTATAATATG
8544354 TT
1 TT
8544356 GGTATGTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (33 bp):
TTAACATGTCACATTATCATCAATTATAATATG
Found at i:8553029 original size:23 final size:23
Alignment explanation
Indices: 8553003--8553047 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8552993 TTAATAAAGT
*
8553003 TATAATGTTAAAAAATTTTAAAA
1 TATAAAGTTAAAAAATTTTAAAA
* *
8553026 TATAAAGTTTATAAATTTTAAA
1 TATAAAGTTAAAAAATTTTAAA
8553048 TTTCAATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
TATAAAGTTAAAAAATTTTAAAA
Found at i:8569288 original size:29 final size:30
Alignment explanation
Indices: 8569246--8569303 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
8569236 AACTATTAAT
* *
8569246 TATAAGAACTTATTTGA-TTCAAATAAAAA
1 TATAAAAACTTATTTGATTTAAAATAAAAA
8569275 TATAAAAACTTATTTGATTTAAAATAAAA
1 TATAAAAACTTATTTGATTTAAAATAAAA
8569304 GTGCAAGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (30 bp):
TATAAAAACTTATTTGATTTAAAATAAAAA
Found at i:8569836 original size:19 final size:19
Alignment explanation
Indices: 8569814--8569851 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8569804 AAAGGCATAA
*
8569814 TATTAAAAAAAATTTAAAT
1 TATTAAAAAAAATTCAAAT
*
8569833 TATTTAAAAAAATTCAAAT
1 TATTAAAAAAAATTCAAAT
8569852 AAGGTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
TATTAAAAAAAATTCAAAT
Found at i:8569890 original size:29 final size:29
Alignment explanation
Indices: 8569859--8569915 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
8569849 AATAAGGTTT
*
8569859 TTTTATTGT-G-TTTAATCAAGTTCTTATA
1 TTTTATTGTAGATTGAAT-AAGTTCTTATA
*
8569887 TTTTGTTGTAGATTGAATAAGTTCTTATA
1 TTTTATTGTAGATTGAATAAGTTCTTATA
8569916 ATTAATGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.32
29 12 0.48
30 5 0.20
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.54
Consensus pattern (29 bp):
TTTTATTGTAGATTGAATAAGTTCTTATA
Found at i:8577317 original size:48 final size:48
Alignment explanation
Indices: 8577246--8577340 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
8577236 AAGTTTCTTG
8577246 TTAGTAACAATTTGTATGTGTTGCAATCCATGGTTGAGTAGTGCCTTA
1 TTAGTAACAATTTGTATGTGTTGCAATCCATGGTTGAGTAGTGCCTTA
* *
8577294 TTAGTAGCAATTTGTATGTGTTGCAATCCATGGTTGAGTTGTGCCTT
1 TTAGTAACAATTTGTATGTGTTGCAATCCATGGTTGAGTAGTGCCTT
8577341 GTGACATTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (48 bp):
TTAGTAACAATTTGTATGTGTTGCAATCCATGGTTGAGTAGTGCCTTA
Found at i:8581069 original size:54 final size:53
Alignment explanation
Indices: 8580983--8581095 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 53
8580973 TCGCCGCCGG
*
8580983 TTATGTTGGGAAATTTCACTAGGCTTCCTGGGGCGACAGAGAATACCAGAAGAT
1 TTATGTTGGGAAATTTCACTAGGCTTCCTGGGGCAACAGA-AATACCAGAAGAT
* * *
8581037 TTATGTTGGGAAATTTCACTAGGCTTCTTGGGGCAACCGAAATACGAGAAGAT
1 TTATGTTGGGAAATTTCACTAGGCTTCCTGGGGCAACAGAAATACCAGAAGAT
8581090 TTATGT
1 TTATGT
8581096 GATTTTGGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
53 18 0.33
54 37 0.67
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (53 bp):
TTATGTTGGGAAATTTCACTAGGCTTCCTGGGGCAACAGAAATACCAGAAGAT
Found at i:8582226 original size:27 final size:26
Alignment explanation
Indices: 8582184--8582316 Score: 95
Period size: 27 Copynumber: 4.9 Consensus size: 26
8582174 TTATGGTATG
8582184 TAATAATTAAATTTTTAATATGATTA
1 TAATAATTAAATTTTTAATATGATTA
* *
8582210 TAATAATTATATTTTTTTAATATGAAATA
1 TAATAATTA-A-ATTTTTAATATG-ATTA
* * ** ** *
8582239 TAGTAACTAAATCATCGATGTGATTA
1 TAATAATTAAATTTTTAATATGATTA
* * * *
8582265 GTAACAATTATATTTTTAACATGATGTG
1 -TAATAATTAAATTTTTAATATGAT-TA
8582293 TAATAATTAAATTTTTTAATATGA
1 TAATAATTAAA-TTTTTAATATGA
8582317 CACGTACGTA
Statistics
Matches: 76, Mismatches: 25, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
26 12 0.16
27 30 0.39
28 24 0.32
29 10 0.13
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (26 bp):
TAATAATTAAATTTTTAATATGATTA
Found at i:8582358 original size:28 final size:28
Alignment explanation
Indices: 8582265--8582398 Score: 90
Period size: 34 Copynumber: 4.6 Consensus size: 28
8582255 GATGTGATTA
* **
8582265 GTAACAATTATA-TTTTTAACATGATGT
1 GTAATAATTATATTTTTTAACATGACAT
* *
8582292 GTAATAATTAAATTTTTTAATATGACACGT
1 GTAATAATTATATTTTTTAACATGACA--T
*
8582322 ACGTATAATATTTATATTTTTTAACATGACAT
1 --G--TAATAATTATATTTTTTAACATGACAT
* ** * * *
8582354 GTAATAATTAAAAAATTTTCATATGATAT
1 GTAATAATT-ATATTTTTTAACATGACAT
8582383 GTAATAATTATATTTT
1 GTAATAATTATATTTT
8582399 CAACGCTATT
Statistics
Matches: 81, Mismatches: 18, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
27 10 0.12
28 22 0.27
29 22 0.27
30 2 0.02
32 2 0.02
34 23 0.28
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (28 bp):
GTAATAATTATATTTTTTAACATGACAT
Found at i:8588160 original size:171 final size:168
Alignment explanation
Indices: 8587860--8588183 Score: 422
Period size: 171 Copynumber: 1.9 Consensus size: 168
8587850 TAGAGGAAAA
* * *
8587860 CAAGAGAAACCCAATTTCTAAAAGTCCCAAAAAATGCATTTTTGATGCTCAAAAAGAGATTTTGA
1 CAAGAAAAACCCAATTGCTAAAAGTCCCAAAAAATGCATTTTTGATGCTCAAAAAGAGAATTTGA
* ** *
8587925 AGGAAAGCAAGAAAAACTTACTTGAAAAAGGTCCCAAAAAATGCATCAAAACTAGGCAAGAAGAA
66 AGGAAAACAAGAAAAACCCACTAGAAAAAGGTCCCAAAAAATGCATCAAAACTAGGC--G-AGAA
8587990 GAAGAAAATAAAGAAAATGAAATCCCTCTTGTAGGGGACAG
128 GAAGAAAATAAAGAAAATGAAATCCCTCTTGTAGGGGACAG
*
8588031 CAAGAAAAACCCACTTGCTAAAAGTCCCAAAAAAAT-CATTTTTGATAG-T-AAAAAGGAGAATT
1 CAAGAAAAACCCAATTGCTAAAAGTCCC-AAAAAATGCATTTTTGAT-GCTCAAAAA-GAGAATT
* * * * *
8588093 TGGAGGAAAACAAGAAAATCCCACTAGAAAAAGGTTCCC-TAAAATGCATGAAAGCTAGGCGAGA
63 TGAAGGAAAACAAGAAAAACCCACTAGAAAAAGG-TCCCAAAAAATGCATCAAAACTAGGCGAGA
* *
8588157 AGAAGAATATGAAGAAAATGAAATCCC
127 AGAAGAAAATAAAGAAAATGAAATCCC
8588184 AGCATTGGAG
Statistics
Matches: 134, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
168 28 0.21
169 1 0.01
170 5 0.04
171 88 0.66
172 12 0.09
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (168 bp):
CAAGAAAAACCCAATTGCTAAAAGTCCCAAAAAATGCATTTTTGATGCTCAAAAAGAGAATTTGA
AGGAAAACAAGAAAAACCCACTAGAAAAAGGTCCCAAAAAATGCATCAAAACTAGGCGAGAAGAA
GAAAATAAAGAAAATGAAATCCCTCTTGTAGGGGACAG
Found at i:8590596 original size:147 final size:144
Alignment explanation
Indices: 8590288--8590617 Score: 384
Period size: 147 Copynumber: 2.3 Consensus size: 144
8590278 TTTTAAAAGT
* * * *
8590288 TTCAAAA-TCAAATTTTAAATAATAAACATAAGATTTATAAGACGAGAGACAATTACATGTAATT
1 TTCAAAATTCAATTTTTAAATAATAAAAATAAAATTTATGAGACGAGAGACAATTACATGTAATT
* * * * *
8590352 TGACCTCATTTTCTTTCATAATTAATTGTAATATCAATTTGCTATGGTGAAGTAAAGGTGGGGCT
66 TGACCTCATTTTCTTTCATAATTAATTGAAATATAAATTTGCTATGATGAAGTAAAGGTGAGACT
8590417 CATTATTGATTTGC
131 CATTATTGATTTGC
* * * **
8590431 TTCAGAATTGAATTTTTAAATAATAAAAATAAAATTTATGAGATGAGAGA-AAGTTAGGTGTAAT
1 TTCAAAATTCAATTTTTAAATAATAAAAATAAAATTTATGAGACGAGAGACAA-TTACATGTAAT
** *
8590495 TTGATGTCATTTT-TCTTCATACAATTGAATTGAAATATAAATTTGCTATGAT-CAG-ACAAGGG
65 TTGACCTCATTTTCT-TTCAT--AATT-AATTGAAATATAAATTTGCTATGATGAAGTA-AA-GG
*
8590557 TGAGACTCATTCTTGATTTG-
124 TGAGACTCATTATTGATTTGC
8590577 TTCAAAAATTCAATTTTTAAATAATAAAAATAAAATTTATG
1 TTC-AAAATTCAATTTTTAAATAATAAAAATAAAATTTATG
8590618 CACTCGAACA
Statistics
Matches: 158, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
143 9 0.06
144 61 0.39
145 1 0.01
146 11 0.07
147 76 0.48
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (144 bp):
TTCAAAATTCAATTTTTAAATAATAAAAATAAAATTTATGAGACGAGAGACAATTACATGTAATT
TGACCTCATTTTCTTTCATAATTAATTGAAATATAAATTTGCTATGATGAAGTAAAGGTGAGACT
CATTATTGATTTGC
Found at i:8591151 original size:22 final size:22
Alignment explanation
Indices: 8591126--8591179 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
8591116 AATTAGTTAA
* *
8591126 TAGATATTGTATTACTGGTTTT
1 TAGATATTGTATAACTGGATTT
*
8591148 TAGATATTGTGTAACTGGATTT
1 TAGATATTGTATAACTGGATTT
*
8591170 TAGGTATTGT
1 TAGATATTGT
8591180 CAGACTAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.50
Consensus pattern (22 bp):
TAGATATTGTATAACTGGATTT
Found at i:8591306 original size:22 final size:22
Alignment explanation
Indices: 8591278--8591444 Score: 66
Period size: 22 Copynumber: 7.5 Consensus size: 22
8591268 GATTTTTAGA
8591278 CAATACCTAAAAACTAGTCACG
1 CAATACCTAAAAACTAGTCACG
** * *
8591300 CAATACCTTACTAACTAATTACG
1 CAATACC-TAAAAACTAGTCACG
* * ** * *
8591323 TAATACTTATCAACTAGTTACA
1 CAATACCTAAAAACTAGTCACG
** *
8591345 CAATACCATACCAACCAGTCACG
1 CAATACC-TAAAAACTAGTCACG
*** * *
8591368 CAATGTTTAAAAA-TCAGTTACA
1 CAATACCTAAAAACT-AGTCACG
* * *
8591390 TAATATCTAAAAATTAGTCACG
1 CAATACCTAAAAACTAGTCACG
* * * *
8591412 TAATGCTTAAAAATTAGTCACG
1 CAATACCTAAAAACTAGTCACG
*
8591434 TAATACCTAAA
1 CAATACCTAAA
8591445 TGCCAGTTAT
Statistics
Matches: 107, Mismatches: 34, Indels: 8
0.72 0.23 0.05
Matches are distributed among these distances:
22 75 0.70
23 32 0.30
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.28
Consensus pattern (22 bp):
CAATACCTAAAAACTAGTCACG
Found at i:8591411 original size:44 final size:44
Alignment explanation
Indices: 8591361--8591444 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
8591351 CATACCAACC
* * *
8591361 AGTCACGCAATGTTTAAAAATCAGTTACATAATATCTAAAAATT
1 AGTCACGCAATGCTTAAAAATCAGTCACATAATACCTAAAAATT
* * *
8591405 AGTCACGTAATGCTTAAAAATTAGTCACGTAATACCTAAA
1 AGTCACGCAATGCTTAAAAATCAGTCACATAATACCTAAA
8591445 TGCCAGTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (44 bp):
AGTCACGCAATGCTTAAAAATCAGTCACATAATACCTAAAAATT
Found at i:8591646 original size:18 final size:20
Alignment explanation
Indices: 8591609--8591650 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
8591599 TTATGTATCA
*
8591609 AAAACTACTCCAAAATGCTT
1 AAAACTACTCCAAAACGCTT
8591629 AAAA-TACT-CAAAACGCTT
1 AAAACTACTCCAAAACGCTT
8591647 AAAA
1 AAAA
8591651 GTTTTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
19 4 0.19
20 4 0.19
ACGTcount: A:0.52, C:0.21, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAACTACTCCAAAACGCTT
Found at i:8593066 original size:29 final size:28
Alignment explanation
Indices: 8593012--8593081 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
8593002 GTTAATTATA
8593012 AAAATTTATTTGATTAATAATAAAAGTAT
1 AAAATTTATTTGATTAAT-ATAAAAGTAT
*
8593041 AAAACTTTATTTGCATGTAAT-T-AAAGAATT
1 AAAA-TTTATTTG-AT-TAATATAAAAGTA-T
8593071 AAAATTTATTT
1 AAAATTTATTT
8593082 AATTTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
29 16 0.44
30 14 0.39
31 2 0.06
32 4 0.11
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (28 bp):
AAAATTTATTTGATTAATATAAAAGTAT
Found at i:8594438 original size:3 final size:3
Alignment explanation
Indices: 8594430--8594467 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8594420 AGAGGTACTG
8594430 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
8594468 GTACGCTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:8621667 original size:6 final size:6
Alignment explanation
Indices: 8621649--8621752 Score: 145
Period size: 6 Copynumber: 17.3 Consensus size: 6
8621639 GCTTCACATG
* * *
8621649 ATCTTC ATTTTC ATCTTC ATCTTC ATCTTC ATATTC ATCTTC ATCATC
1 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC
* * * *
8621697 ATCTTC ATCTTC ATCATC ATCTTC ATCTTC ATATTC ATTTTC ATCATC
1 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC
8621745 ATCTTC AT
1 ATCTTC AT
8621753 TATCTTCTCC
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 85 1.00
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (6 bp):
ATCTTC
Found at i:8621804 original size:30 final size:29
Alignment explanation
Indices: 8621662--8621813 Score: 113
Period size: 30 Copynumber: 5.3 Consensus size: 29
8621652 TTCATTTTCA
*
8621662 TCTTCATCTTCATCTTCAT-AT-TCATCT
1 TCTTCATCTTCATCTTTATCATATCATCT
* * *
8621689 TCATCATCATCTTCATCTTCATCATCATCTTCA
1 TC-T--TCATCTTCATCTTTATCAT-ATCATCT
*
8621722 TCTTCATATTCA--TTT-TCATCATCATCT
1 TCTTCATCTTCATCTTTATCAT-ATCATCT
* * *
8621749 TCATT-ATCTTC-TCCTT-CCATGTCATCT
1 TC-TTCATCTTCATCTTTATCATATCATCT
8621776 TCTTCATCTTCATCTTTATCGATATCATCT
1 TCTTCATCTTCATCTTTATC-ATATCATCT
8621806 TCTTCATC
1 TCTTCATC
8621814 CTCAATCGAT
Statistics
Matches: 99, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
26 2 0.02
27 33 0.33
28 14 0.14
29 1 0.01
30 40 0.40
31 2 0.02
32 1 0.01
33 6 0.06
ACGTcount: A:0.20, C:0.30, G:0.01, T:0.49
Consensus pattern (29 bp):
TCTTCATCTTCATCTTTATCATATCATCT
Found at i:8625227 original size:27 final size:27
Alignment explanation
Indices: 8625204--8625264 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
8625194 TTCCCCATGT
*
8625204 AAACTCCAAATTGCGTAAGCCCCAATA
1 AAACCCCAAATTGCGTAAGCCCCAATA
* * *
8625231 AAACCCCAAATTGTGTAAGCCCTAGTA
1 AAACCCCAAATTGCGTAAGCCCCAATA
8625258 AAACCCC
1 AAACCCC
8625265 GGTTTAGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.31, G:0.11, T:0.18
Consensus pattern (27 bp):
AAACCCCAAATTGCGTAAGCCCCAATA
Found at i:8629151 original size:43 final size:43
Alignment explanation
Indices: 8629103--8629255 Score: 225
Period size: 43 Copynumber: 3.6 Consensus size: 43
8629093 TTGACTCGGC
* * *
8629103 TATGTGCGAGTAGGGAGTACGCATAAGTCGATGATGACCCAGT
1 TATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCAGT
*
8629146 TATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCAGT
* * *
8629189 TATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCTAGC
1 TATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCAGT
* *
8629232 CATGTGGGAGTAGGGAGTGCGCAT
1 TATGTGCGAGTAGGGAGTGCGCAT
8629256 GAGCTGGGAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAACTCGGTGATGACCCAGT
Found at i:8629301 original size:26 final size:26
Alignment explanation
Indices: 8629265--8629374 Score: 199
Period size: 26 Copynumber: 4.3 Consensus size: 26
8629255 TGAGCTGGGA
8629265 ATGATGATGATGGGATGGTGTGCATG
1 ATGATGATGATGGGATGGTGTGCATG
8629291 ATGATGATGATGGGATGGTGTGC---
1 ATGATGATGATGGGATGGTGTGCATG
8629314 ATGATGATGATGGGATGGTGTGCATG
1 ATGATGATGATGGGATGGTGTGCATG
8629340 ATGATGATGATGGGATGGTGTGCATG
1 ATGATGATGATGGGATGGTGTGCATG
8629366 ATGATGATG
1 ATGATGATG
8629375 GGTTTATAGT
Statistics
Matches: 81, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
23 23 0.28
26 58 0.72
ACGTcount: A:0.24, C:0.04, G:0.42, T:0.31
Consensus pattern (26 bp):
ATGATGATGATGGGATGGTGTGCATG
Found at i:8629318 original size:49 final size:49
Alignment explanation
Indices: 8629265--8629376 Score: 224
Period size: 49 Copynumber: 2.3 Consensus size: 49
8629255 TGAGCTGGGA
8629265 ATGATGATGATGGGATGGTGTGCATGATGATGATGATGGGATGGTGTGC
1 ATGATGATGATGGGATGGTGTGCATGATGATGATGATGGGATGGTGTGC
8629314 ATGATGATGATGGGATGGTGTGCATGATGATGATGATGGGATGGTGTGC
1 ATGATGATGATGGGATGGTGTGCATGATGATGATGATGGGATGGTGTGC
8629363 ATGATGATGATGGG
1 ATGATGATGATGGG
8629377 TTTATAGTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.23, C:0.04, G:0.43, T:0.30
Consensus pattern (49 bp):
ATGATGATGATGGGATGGTGTGCATGATGATGATGATGGGATGGTGTGC
Found at i:8629560 original size:21 final size:21
Alignment explanation
Indices: 8629517--8629560 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8629507 TGTTCTGATC
* **
8629517 CTCGCTGTAGCGAGATTCATT
1 CTCGCTGCAGCGAGAAACATT
*
8629538 CTCGCTGCAGCGAGAAACTTT
1 CTCGCTGCAGCGAGAAACATT
8629559 CT
1 CT
8629561 GTTTATTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (21 bp):
CTCGCTGCAGCGAGAAACATT
Found at i:8632428 original size:11 final size:11
Alignment explanation
Indices: 8632414--8632456 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8632404 AATTAAATTT
8632414 CGTTGGAAATC
1 CGTTGGAAATC
**
8632425 CGTTTCAAATC
1 CGTTGGAAATC
* *
8632436 CGTTGTAAATT
1 CGTTGGAAATC
8632447 CGTTGGAAAT
1 CGTTGGAAAT
8632457 ACAATGTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (11 bp):
CGTTGGAAATC
Found at i:8636820 original size:2 final size:2
Alignment explanation
Indices: 8636813--8636838 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8636803 CCCTTTGGAT
8636813 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8636839 NTCATATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8636941 original size:2 final size:2
Alignment explanation
Indices: 8636934--8636963 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8636924 ATTTATTCGG
8636934 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8636964 GTGCTTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8637436 original size:73 final size:75
Alignment explanation
Indices: 8637337--8637523 Score: 181
Period size: 73 Copynumber: 2.5 Consensus size: 75
8637327 TAATATCAGC
* *
8637337 TCTTAAATATATTTTTA-ATTTCATATATTTTATTTTCATTTCTTATTA-TA-ATCT-TATATAT
1 TCTTTAATATATTTTTATA-TT-ATATATTTTATTTTCATTTCTT-TTACTATAT-TATATAAAT
*
8637398 TTT-ATTT-TTATT
62 TTTAATTTCTTATA
* *
8637410 TCTTTAATATAGTTTTTATATTATATATTTTGTTTTTATTTCTTTTACCTATATTATATAAATTT
1 TCTTTAATATA-TTTTTATATTATATATTTTATTTTCATTTCTTTTA-CTATATTATATAAATTT
8637475 TAATTTCTTATA
64 TAATTTCTTATA
* *
8637487 T-TTTAATTTCTAATTCTTATATTATATATTTTATTTT
1 TCTTTAA--TAT-ATTTTTATATTATATATTTTATTTT
8637524 AATTATAACA
Statistics
Matches: 95, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
72 3 0.03
73 30 0.32
74 11 0.12
75 12 0.13
76 9 0.09
77 5 0.05
78 24 0.25
79 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (75 bp):
TCTTTAATATATTTTTATATTATATATTTTATTTTCATTTCTTTTACTATATTATATAAATTTTA
ATTTCTTATA
Found at i:8637503 original size:21 final size:21
Alignment explanation
Indices: 8637470--8637519 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
8637460 ATATTATATA
8637470 AATTTTAATTTCTTATATTTT
1 AATTTTAATTTCTTATATTTT
*
8637491 AATTTCTAA-TTCTTATATTAT
1 AATTT-TAATTTCTTATATTTT
8637512 ATATTTTA
1 A-ATTTTA
8637520 TTTTAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTTAATTTCTTATATTTT
Found at i:8637536 original size:26 final size:28
Alignment explanation
Indices: 8637483--8637536 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
8637473 TTTAATTTCT
* * *
8637483 TATATTTTAATTTCTAATTCTTATATTA
1 TATATTTTAATTTCTAATTATAACATTA
8637511 TATATTTT-ATTT-TAATTATAACATTA
1 TATATTTTAATTTCTAATTATAACATTA
8637537 CAAAACGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.48
27 4 0.17
28 8 0.35
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (28 bp):
TATATTTTAATTTCTAATTATAACATTA
Found at i:8641330 original size:16 final size:16
Alignment explanation
Indices: 8641311--8641345 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8641301 GTATAAATTT
*
8641311 CATTTTTATTAAAAAA
1 CATTTTAATTAAAAAA
*
8641327 CATTTTAATTGAAAAA
1 CATTTTAATTAAAAAA
8641343 CAT
1 CAT
8641346 AATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (16 bp):
CATTTTAATTAAAAAA
Found at i:8642712 original size:19 final size:19
Alignment explanation
Indices: 8642688--8642725 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8642678 ACTTATAAAC
8642688 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
8642707 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
8642726 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:8646432 original size:24 final size:24
Alignment explanation
Indices: 8646391--8646472 Score: 58
Period size: 25 Copynumber: 3.3 Consensus size: 24
8646381 TAAAAAAATT
* *
8646391 AAAATATATTTTTTTATTAATTTTA
1 AAAAT-TATTATTATATTAATTTTA
**
8646416 AAAATTATTATTATATTTTTTTTTGAA
1 AAAATTATTATTATA-TTAATTTT--A
* * *
8646443 AAAATTA-TATAATAGTAATTTTT
1 AAAATTATTATTATATTAATTTTA
8646466 AAAATTA
1 AAAATTA
8646473 ATAAAATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
23 7 0.16
24 8 0.18
25 16 0.36
26 6 0.13
27 8 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
AAAATTATTATTATATTAATTTTA
Found at i:8649666 original size:22 final size:21
Alignment explanation
Indices: 8649641--8649685 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8649631 CAAATTTACC
*
8649641 ATTACTATTTAAACAAGTTTTT
1 ATTA-TATTCAAACAAGTTTTT
* *
8649663 ATTATCTTCAACCAAGTTTTT
1 ATTATATTCAAACAAGTTTTT
8649684 AT
1 AT
8649686 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTATATTCAAACAAGTTTTT
Found at i:8651402 original size:26 final size:26
Alignment explanation
Indices: 8651364--8651413 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8651354 GTATCCTAAG
*
8651364 ATCACTTCTCAAACTCAACTTGACCC
1 ATCACTTCTCAAACCCAACTTGACCC
*
8651390 ATCACTT-TCCAAACCCTACTTGAC
1 ATCACTTCT-CAAACCCAACTTGAC
8651414 ACATAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.30, C:0.38, G:0.04, T:0.28
Consensus pattern (26 bp):
ATCACTTCTCAAACCCAACTTGACCC
Found at i:8652118 original size:24 final size:24
Alignment explanation
Indices: 8652072--8652131 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
8652062 TATTAATTTA
*
8652072 AAAAATTATTATTATATATATTTTT
1 AAAAATTA-TATAATATATATTTTT
8652097 AAAAATTATATAATAGTA-ATTTTT
1 AAAAATTATATAATA-TATATTTTT
8652121 -AAAATTA-ATAA
1 AAAAATTATATAA
8652132 AATGTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 4 0.12
23 7 0.21
24 12 0.36
25 10 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAAATTATATAATATATATTTTT
Found at i:8652138 original size:23 final size:24
Alignment explanation
Indices: 8652091--8652138 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8652081 TATTATATAT
*
8652091 ATTTTTAAAAATTATATAATAGTA
1 ATTTTTAAAAATTATAAAATAGTA
8652115 ATTTTT-AAAATTAATAAAAT-GTA
1 ATTTTTAAAAATT-ATAAAATAGTA
8652138 A
1 A
8652139 AATTATCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
ATTTTTAAAAATTATAAAATAGTA
Found at i:8659533 original size:23 final size:23
Alignment explanation
Indices: 8659502--8659547 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8659492 TAGAATAACA
*
8659502 ATTCATAATTCTATTAGGATAAG
1 ATTCATAATTATATTAGGATAAG
*
8659525 ATTCCTAATTATATTAGGATAAG
1 ATTCATAATTATATTAGGATAAG
8659548 GTTATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (23 bp):
ATTCATAATTATATTAGGATAAG
Found at i:8671657 original size:15 final size:16
Alignment explanation
Indices: 8671617--8671669 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
8671607 TAAGAAGTCA
*
8671617 TATAATATA-TATACTA
1 TATAATA-AGTATACTG
*
8671633 TATAAT-AGTATATTG
1 TATAATAAGTATACTG
8671648 T-TAATAAGTATACTG
1 TATAATAAGTATACTG
8671663 TATAATA
1 TATAATA
8671670 TACATAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.16
15 15 0.48
16 11 0.35
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (16 bp):
TATAATAAGTATACTG
Found at i:8677170 original size:24 final size:23
Alignment explanation
Indices: 8677143--8677187 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8677133 ATCTAGTTAG
8677143 ATTAGAATAACAATTCCTAATTCT
1 ATTAGAATAA-AATTCCTAATTCT
* *
8677167 ATTAGGATAAGATTCCTAATT
1 ATTAGAATAAAATTCCTAATT
8677188 AAATTAGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTAGAATAAAATTCCTAATTCT
Found at i:8677185 original size:23 final size:23
Alignment explanation
Indices: 8677155--8677200 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8677145 TAGAATAACA
**
8677155 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTAAATTAGGATAAG
8677178 ATTCCTAATTAAATTAGGATAAG
1 ATTCCTAATTAAATTAGGATAAG
8677201 GTTATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (23 bp):
ATTCCTAATTAAATTAGGATAAG
Found at i:8679302 original size:21 final size:21
Alignment explanation
Indices: 8679273--8679313 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8679263 GATTAGCTAA
8679273 TTTAAGTTATTTTAGTTTAAT
1 TTTAAGTTATTTTAGTTTAAT
* *
8679294 TTTATGTTATTTTATTTTAA
1 TTTAAGTTATTTTAGTTTAA
8679314 ATTACTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTAAGTTATTTTAGTTTAAT
Found at i:8683281 original size:19 final size:18
Alignment explanation
Indices: 8683249--8683310 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
8683239 CAAAGTTAAA
8683249 ATATTATT-TTCTATTATT
1 ATATTATTATTCTATT-TT
8683267 ATATTATTATTCTATTTT
1 ATATTATTATTCTATTTT
* * *
8683285 TTACTTATTATTATTTTTT
1 ATA-TTATTATTCTATTTT
*
8683304 ACATTAT
1 ATATTAT
8683311 CCTGTGTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 16 0.43
19 21 0.57
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
ATATTATTATTCTATTTT
Found at i:8683292 original size:16 final size:18
Alignment explanation
Indices: 8683272--8683310 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8683262 TTATTATATT
8683272 ATTATT-CTATTTTTTAC
1 ATTATTACTATTTTTTAC
*
8683289 -TTATTATTATTTTTTAC
1 ATTATTACTATTTTTTAC
8683306 ATTAT
1 ATTAT
8683311 CCTGTGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 5 0.26
17 10 0.53
18 4 0.21
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTATTACTATTTTTTAC
Found at i:8688048 original size:13 final size:13
Alignment explanation
Indices: 8688030--8688054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8688020 ATTTTCAAAA
8688030 ATTTTATAAAATT
1 ATTTTATAAAATT
8688043 ATTTTATAAAAT
1 ATTTTATAAAAT
8688055 CTCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:8689242 original size:28 final size:28
Alignment explanation
Indices: 8689200--8689262 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
8689190 GCAAATTTTT
*
8689200 AAAAATTACACTTTTACCCC-ATAATGTG
1 AAAAATTACACTTTTACCCCAAAAAT-TG
*
8689228 AAAAATTACATTTTTACCCCAAAAATTG
1 AAAAATTACACTTTTACCCCAAAAATTG
8689256 AAAAATT
1 AAAAATT
8689263 TCCCATAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAAATTACACTTTTACCCCAAAAATTG
Found at i:8697666 original size:14 final size:14
Alignment explanation
Indices: 8697628--8697666 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 14
8697618 AAAGTTAAAA
8697628 TATTATT-TTCTAT
1 TATTATTATTCTAT
8697641 TATTA-TA-T-TAT
1 TATTATTATTCTAT
8697652 TATTATTATTCTAT
1 TATTATTATTCTAT
8697666 T
1 T
8697667 GTTTACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 8 0.36
12 4 0.18
13 6 0.27
14 4 0.18
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTATTCTAT
Found at i:8697666 original size:25 final size:24
Alignment explanation
Indices: 8697628--8697685 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
8697618 AAAGTTAAAA
8697628 TATTATTTTCTATTATTATA-TTAT
1 TATTATTTTCTATTATT-TACTTAT
*
8697652 TATTATTATTCTATTGTTTACTTAT
1 TATTATT-TTCTATTATTTACTTAT
8697677 TATTATTTT
1 TATTATTTT
8697686 TTACATTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTATTTTCTATTATTTACTTAT
Found at i:8701601 original size:24 final size:24
Alignment explanation
Indices: 8701574--8701637 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
8701564 TTTGAAAACG
* *
8701574 GACATTTGTATCTATTGAAAAATA
1 GACAATTGTATCTATTAAAAAATA
*
8701598 GACAATTGTGTCTA-TAAAAAATA
1 GACAATTGTATCTATTAAAAAATA
* *
8701621 GATAGTTGTATCTATTA
1 GACAATTGTATCTATTA
8701638 GGCAAAGGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 19 0.58
24 14 0.42
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (24 bp):
GACAATTGTATCTATTAAAAAATA
Found at i:8702399 original size:34 final size:34
Alignment explanation
Indices: 8702361--8702426 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
8702351 ATTTTTATTA
**
8702361 TATTTTTTAAATTTATATGTTGATAACTTTTTCG
1 TATTTTTTAAATTTATAAATTGATAACTTTTTCG
* *
8702395 TATTTTTTGAGTTTATAAATTGATAACTTTTT
1 TATTTTTTAAATTTATAAATTGATAACTTTTT
8702427 ATGCCCTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (34 bp):
TATTTTTTAAATTTATAAATTGATAACTTTTTCG
Found at i:8710992 original size:2 final size:2
Alignment explanation
Indices: 8710985--8711011 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8710975 ACATCTTTCC
8710985 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8711012 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8711685 original size:21 final size:22
Alignment explanation
Indices: 8711659--8711699 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8711649 ATTTTAAGCA
*
8711659 ATTAAAATAATAA-ATAATAAC
1 ATTAAAAAAATAACATAATAAC
8711680 ATTAAAAAAATAACATAATA
1 ATTAAAAAAATAACATAATA
8711700 TTTTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
ATTAAAAAAATAACATAATAAC
Found at i:8711854 original size:20 final size:20
Alignment explanation
Indices: 8711831--8711877 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
8711821 AAATTTTATT
*
8711831 GATAGATCATATTATCTATC
1 GATAGATCATACTATCTATC
*
8711851 GATAGATTATACTATCTATC
1 GATAGATCATACTATCTATC
*
8711871 AATAGAT
1 GATAGAT
8711878 AAATAACAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (20 bp):
GATAGATCATACTATCTATC
Found at i:8712127 original size:20 final size:20
Alignment explanation
Indices: 8712086--8712127 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
8712076 ATTTCTTGAA
* *
8712086 AATCTAAATTAAGTTTTTAT
1 AATCTAAATTAAGATTTCAT
8712106 AATCTAAATTAAGATTTCAT
1 AATCTAAATTAAGATTTCAT
8712126 AA
1 AA
8712128 AACTCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (20 bp):
AATCTAAATTAAGATTTCAT
Found at i:8712286 original size:24 final size:25
Alignment explanation
Indices: 8712247--8712301 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
8712237 GCAAGGTGAG
8712247 AAGAAGGAGAAAAAGGT--GAGAAGA
1 AAGAAGGAGAAAAAGGTAGGA-AAGA
**
8712271 AAGAAGGAGACGAAGGTAGGAAAGA
1 AAGAAGGAGAAAAAGGTAGGAAAGA
8712296 AAGAAG
1 AAGAAG
8712302 TGAAGACGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 15 0.56
25 10 0.37
26 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.38, T:0.04
Consensus pattern (25 bp):
AAGAAGGAGAAAAAGGTAGGAAAGA
Found at i:8712324 original size:29 final size:26
Alignment explanation
Indices: 8712247--8712324 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 26
8712237 GCAAGGTGAG
**
8712247 AAGAAGGAGAAAAAGGT-G-AGAAGA
1 AAGAAGGAGACGAAGGTAGAAGAAGA
*
8712271 AAGAAGGAGACGAAGGTAGGA-AAGA
1 AAGAAGGAGACGAAGGTAGAAGAAGA
8712296 AAGAAGTGAAGACGGCAAGG-AGAAGAAGA
1 AAGAAG-G-AGAC-G-AAGGTAGAAGAAGA
8712325 GAAGGTCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
24 15 0.34
25 11 0.25
26 2 0.05
27 4 0.09
28 4 0.09
29 8 0.18
ACGTcount: A:0.54, C:0.04, G:0.38, T:0.04
Consensus pattern (26 bp):
AAGAAGGAGACGAAGGTAGAAGAAGA
Found at i:8714074 original size:18 final size:19
Alignment explanation
Indices: 8714030--8714067 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8714020 AAAAGTAAAA
*
8714030 AAAATTATTTAAATTTTTT
1 AAAATAATTTAAATTTTTT
8714049 AAAATAATTTAAATTTTTT
1 AAAATAATTTAAATTTTTT
8714068 TTATAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AAAATAATTTAAATTTTTT
Found at i:8720561 original size:17 final size:17
Alignment explanation
Indices: 8720539--8720573 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8720529 AAGACTTTTT
8720539 TTTTTAAAAAAAAATTA
1 TTTTTAAAAAAAAATTA
* *
8720556 TTTTTAAATAACAATTA
1 TTTTTAAAAAAAAATTA
8720573 T
1 T
8720574 ATATAAAAGA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTTTAAAAAAAAATTA
Found at i:8730765 original size:18 final size:19
Alignment explanation
Indices: 8730731--8730766 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8730721 GATTTTCTTC
8730731 TTTTATTTATAAATTAATA
1 TTTTATTTATAAATTAATA
*
8730750 TTTTTTTTAT-AATTAAT
1 TTTTATTTATAAATTAAT
8730767 GGAGAAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTATTTATAAATTAATA
Found at i:8735223 original size:4 final size:4
Alignment explanation
Indices: 8735214--8735254 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
8735204 AAGAACTAGA
8735214 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
8735255 TATATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:8735312 original size:2 final size:2
Alignment explanation
Indices: 8735252--8735298 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
8735242 ACATACATAC
8735252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8735294 AT AT A
1 AT AT A
8735299 AGNAACAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8741694 original size:22 final size:22
Alignment explanation
Indices: 8741669--8741721 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
8741659 ACTTTTGAAA
8741669 TCTTCCTTTCTCATTTGCTCTT
1 TCTTCCTTTCTCATTTGCTCTT
8741691 TCTTCCTTTCTCATTTGCTCTT
1 TCTTCCTTTCTCATTTGCTCTT
8741713 TCTTCCTTT
1 TCTTCCTTT
8741722 AACTTCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.60
Consensus pattern (22 bp):
TCTTCCTTTCTCATTTGCTCTT
Found at i:8742623 original size:21 final size:22
Alignment explanation
Indices: 8742577--8742640 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 22
8742567 ACAAAATTTC
8742577 AATTATCTATATTTTAAACTAA
1 AATTATCTATATTTTAAACTAA
* * *
8742599 AATTATTTGTATTTTATAC-AA
1 AATTATCTATATTTTAAACTAA
*
8742620 AATT-T-T-TATTTTAAAATAA
1 AATTATCTATATTTTAAACTAA
8742639 AA
1 AA
8742641 AATATATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.22
19 5 0.14
20 1 0.03
21 6 0.17
22 16 0.44
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTATCTATATTTTAAACTAA
Found at i:8742676 original size:2 final size:2
Alignment explanation
Indices: 8742669--8742748 Score: 142
Period size: 2 Copynumber: 39.5 Consensus size: 2
8742659 TAAGAACTAG
*
8742669 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA NTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
8742712 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8742749 TTGTTTCTTA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 74 0.99
3 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8747432 original size:15 final size:18
Alignment explanation
Indices: 8747394--8747433 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
8747384 TATTTTTTTA
8747394 ATTTTAATAGTATTGAAT
1 ATTTTAATAGTATTGAAT
*
8747412 AATTTAA-A-TATT-AAT
1 ATTTTAATAGTATTGAAT
8747427 ATTTTAA
1 ATTTTAA
8747434 GTTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 1 0.05
18 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTTTAATAGTATTGAAT
Found at i:8747480 original size:20 final size:20
Alignment explanation
Indices: 8747415--8747484 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
8747405 ATTGAATAAT
8747415 TTAAATATTAATATTTTAAG
1 TTAAATATTAATATTTTAAG
8747435 TTAAA-A--AAT-TTTTAAG
1 TTAAATATTAATATTTTAAG
** *
8747451 TT-GTTTTTAATATTTTAAG
1 TTAAATATTAATATTTTAAG
8747470 TTAAATATTAATATT
1 TTAAATATTAATATT
8747485 CATCAAATCT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 9 0.23
17 3 0.08
18 3 0.08
19 10 0.26
20 14 0.36
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (20 bp):
TTAAATATTAATATTTTAAG
Found at i:8747561 original size:19 final size:19
Alignment explanation
Indices: 8747533--8747572 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
8747523 ATCTTCTGTT
8747533 CTCTGAAAAATGTCTTACA
1 CTCTGAAAAATGTCTTACA
*
8747552 CTCTGGAAAATGTCTTACA
1 CTCTGAAAAATGTCTTACA
8747571 CT
1 CT
8747573 TCTCAAAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (19 bp):
CTCTGAAAAATGTCTTACA
Found at i:8767207 original size:19 final size:20
Alignment explanation
Indices: 8767170--8767216 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
8767160 TTGAATATTT
*
8767170 TCTTTTATAAAATGAAAATC
1 TCTTTTATAAAAGGAAAATC
8767190 TCTTTTAT-AAAGGAAAATC
1 TCTTTTATAAAAGGAAAATC
8767209 TCTTTTAT
1 TCTTTTAT
8767217 TATTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (20 bp):
TCTTTTATAAAAGGAAAATC
Found at i:8767544 original size:24 final size:24
Alignment explanation
Indices: 8767517--8767565 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8767507 TCATTAACTC
* *
8767517 ATTAATGTTTTAACTTATTAATAT
1 ATTAATATTTTAAATTATTAATAT
*
8767541 ATTACTATTTTAAATTATTAATAT
1 ATTAATATTTTAAATTATTAATAT
8767565 A
1 A
8767566 AGTTATACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTAATATTTTAAATTATTAATAT
Found at i:8775057 original size:2 final size:2
Alignment explanation
Indices: 8775050--8775076 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8775040 AACAGGTCTT
8775050 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8775077 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8795458 original size:27 final size:27
Alignment explanation
Indices: 8795420--8795474 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
8795410 TAAAAATCTT
8795420 AATGGCGGATTTATCTCCTGCTCACTA
1 AATGGCGGATTTATCTCCTGCTCACTA
*
8795447 AATGGTGGATTTATCTCCTGCTCACTA
1 AATGGCGGATTTATCTCCTGCTCACTA
8795474 A
1 A
8795475 CTGCCAAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (27 bp):
AATGGCGGATTTATCTCCTGCTCACTA
Found at i:8799739 original size:31 final size:29
Alignment explanation
Indices: 8799697--8799779 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 29
8799687 CATGTCATAA
8799697 GAACTAAATTGAAGAAAAATATATAGTACAG
1 GAACTAAATTGAA-AAAAATATATAGTA-AG
* * * **
8799728 GAATTAAATTGAACAAAATTAAGATTTTAAG
1 GAACTAAATTGAA-AAAAAT-ATATAGTAAG
8799759 GAACTAAATTGAAAAAAATAT
1 GAACTAAATTGAAAAAAATAT
8799780 TTGAAAGGTA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
29 1 0.02
30 5 0.12
31 31 0.74
32 5 0.12
ACGTcount: A:0.55, C:0.05, G:0.13, T:0.27
Consensus pattern (29 bp):
GAACTAAATTGAAAAAAATATATAGTAAG
Found at i:8800063 original size:54 final size:53
Alignment explanation
Indices: 8800005--8800112 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 53
8799995 AGTCAAATTT
8800005 AGTTGAATAACTTGTATTACGTTAAAATAAAATAATATAAACTAAATATGTTG
1 AGTTGAATAACTTGTATTACGTTAAAATAAAATAATATAAACTAAATATGTTG
8800058 NAGTTGAATAACTTGTATTACGTTAAAATAAAATAATATAAACTAAATATGTTG
1 -AGTTGAATAACTTGTATTACGTTAAAATAAAATAATATAAACTAAATATGTTG
8800112 A
1 A
8800113 TTTAATTACA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (53 bp):
AGTTGAATAACTTGTATTACGTTAAAATAAAATAATATAAACTAAATATGTTG
Found at i:8800237 original size:108 final size:109
Alignment explanation
Indices: 8800102--8800312 Score: 370
Period size: 108 Copynumber: 1.9 Consensus size: 109
8800092 AATATAAACT
* *
8800102 AAATATGTTGATTTAATTACAATTTTCACAATTTACAAATACACATTCTTTTAAAATTATTCAAC
1 AAATATGTTAATTTAATTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTCAAC
8800167 TCTTACCCAATTTA-CTTTTTATTTAAATTTACTCAAATTAGCA
66 TCTTACCCAATTTATCTTTTTATTTAAATTTACTCAAATTAGCA
**
8800210 AAATATGTTAATTTAATTACAACTTTCACAATTTACAAATACACATTCTTTTGCAATTATTCAAC
1 AAATATGTTAATTTAATTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTCAAC
*
8800275 TCTTACCCAATTTATCTTTTTGTTTAAATTTACTCAAA
66 TCTTACCCAATTTATCTTTTTATTTAAATTTACTCAAA
8800313 ATTTCTTATA
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
108 75 0.77
109 22 0.23
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.44
Consensus pattern (109 bp):
AAATATGTTAATTTAATTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTCAAC
TCTTACCCAATTTATCTTTTTATTTAAATTTACTCAAATTAGCA
Found at i:8803920 original size:13 final size:13
Alignment explanation
Indices: 8803902--8803926 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8803892 TTTTCTTTCA
8803902 TTTTCTTTTCTTG
1 TTTTCTTTTCTTG
8803915 TTTTCTTTTCTT
1 TTTTCTTTTCTT
8803927 TTCATTTCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTCTTG
Found at i:8805199 original size:43 final size:43
Alignment explanation
Indices: 8805130--8805342 Score: 243
Period size: 43 Copynumber: 5.0 Consensus size: 43
8805120 TGTGACAATG
* * *
8805130 ATGACCCAGCTATGTGCG-GTGTGGGAGTCCACATGAGTTGATA
1 ATGACCCAGCTATGTGCGAGT-AGGGAGTGCACATGAGCTGATA
* *
8805173 ATGACCCAGCTATGTGTGAGTAGGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATA
** * *
8805216 ATGACCTGGCTATGTGCGAGTAAGGAGTGCACATGAGCCGATA
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATA
* * * *
8805259 ATGACCCAGCTATGTGCG-GT-GTGAGAGTGCAAACGAGTTGATG
1 ATGACCCAGCTATGTGCGAGTAG-G-GAGTGCACATGAGCTGATA
* *
8805302 ATGACCCGGTTATGTGCGAGTAGGGAGTGCACATGAGCTGA
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGA
8805343 ATGAGCTGAG
Statistics
Matches: 141, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
42 3 0.02
43 132 0.94
44 5 0.04
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.23
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATA
Found at i:8805229 original size:86 final size:86
Alignment explanation
Indices: 8805127--8805339 Score: 270
Period size: 86 Copynumber: 2.5 Consensus size: 86
8805117 TTGTGTGACA
* * * ** *
8805127 ATGATGACCCAGCTATGTGCG-GTGTGGGAGTCCACATGAGTTGATAATGACCCAGCTATGTGTG
1 ATGATGACCCGGCTATGTGCGAGT-AGGGAGTGCACATGAGCCGATAATGACCCAGCTATGTGCG
* *
8805191 AGTAG-G-GAGTGCACATGAGCTG
65 -GT-GTGAGAGTGCAAACGAGCTG
* *
8805213 ATGATGACCTGGCTATGTGCGAGTAAGGAGTGCACATGAGCCGATAATGACCCAGCTATGTGCGG
1 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACATGAGCCGATAATGACCCAGCTATGTGCGG
*
8805278 TGTGAGAGTGCAAACGAGTTG
66 TGTGAGAGTGCAAACGAGCTG
*
8805299 ATGATGACCCGGTTATGTGCGAGTAGGGAGTGCACATGAGC
1 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACATGAGC
8805340 TGAATGAGCT
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 3 0.03
86 104 0.95
87 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.23
Consensus pattern (86 bp):
ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACATGAGCCGATAATGACCCAGCTATGTGCGG
TGTGAGAGTGCAAACGAGCTG
Found at i:8807501 original size:21 final size:21
Alignment explanation
Indices: 8807476--8807525 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
8807466 ACTTGATATC
8807476 CTTGATATGTCATAATATCTA
1 CTTGATATGTCATAATATCTA
*
8807497 CTTGATATGTCATAATATTTA
1 CTTGATATGTCATAATATCTA
8807518 CTTGATAT
1 CTTGATAT
8807526 CCATTGCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (21 bp):
CTTGATATGTCATAATATCTA
Found at i:8810033 original size:19 final size:19
Alignment explanation
Indices: 8809989--8810025 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8809979 CCATTTGACT
*
8809989 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
8810008 TATTAGAGTATGATTTGA
1 TATTAGAGTATGATTTGA
8810026 AGTTTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:8827721 original size:19 final size:19
Alignment explanation
Indices: 8827697--8827736 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8827687 CCAAATGACC
8827697 CAAAAAGTATCACTAGAGG
1 CAAAAAGTATCACTAGAGG
* *
8827716 CAAAAAGTGTCACTAGCGG
1 CAAAAAGTATCACTAGAGG
8827735 CA
1 CA
8827737 GCACCAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
CAAAAAGTATCACTAGAGG
Found at i:8831706 original size:21 final size:21
Alignment explanation
Indices: 8831659--8831711 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
8831649 CATCTCTCTC
* * *
8831659 ATTTTTATCTATCTCTATTTA
1 ATTTTTATGTATCTATATTAA
* *
8831680 ACTTTTATGTATTTATATTAA
1 ATTTTTATGTATCTATATTAA
8831701 ATTTTTTATGT
1 A-TTTTTATGT
8831712 TTATACAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTTTATGTATCTATATTAA
Found at i:8849805 original size:5 final size:5
Alignment explanation
Indices: 8849770--8849794 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8849760 ACTGCTTTAT
8849770 AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA
8849795 GAGGAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:8854130 original size:35 final size:35
Alignment explanation
Indices: 8854075--8854151 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
8854065 TATTATATAG
*
8854075 AGAACAACCAGAACAAGTGAAGTGTTACTTCACGC
1 AGAACAACCAGAACAAGTGAAGCGTTACTTCACGC
* *
8854110 AGAATAACTAGAACAAGTGAAGCGTTACTTCACGC
1 AGAACAACCAGAACAAGTGAAGCGTTACTTCACGC
8854145 AGAACAA
1 AGAACAA
8854152 GTGAAGCGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (35 bp):
AGAACAACCAGAACAAGTGAAGCGTTACTTCACGC
Found at i:8854155 original size:26 final size:26
Alignment explanation
Indices: 8854119--8854193 Score: 141
Period size: 26 Copynumber: 2.9 Consensus size: 26
8854109 CAGAATAACT
*
8854119 AGAACAAGTGAAGCGTTACTTCACGC
1 AGAACAAGTGAAGCGCTACTTCACGC
8854145 AGAACAAGTGAAGCGCTACTTCACGC
1 AGAACAAGTGAAGCGCTACTTCACGC
8854171 AGAACAAGTGAAGCGCTACTTCA
1 AGAACAAGTGAAGCGCTACTTCA
8854194 AGTATTACTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
AGAACAAGTGAAGCGCTACTTCACGC
Found at i:8854505 original size:29 final size:28
Alignment explanation
Indices: 8854473--8854542 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
8854463 CTCGTATACT
*
8854473 TATTCATGTACAGCTTATTCTCTTGTACC
1 TATTC-TGTACAGCTTATTCTCTCGTACC
* *
8854502 TATTCTCATACAGCTTCTTCTCTCGTACC
1 TATTCT-GTACAGCTTATTCTCTCGTACC
8854531 TATTCTTGTACA
1 TATTC-TGTACA
8854543 CCTCTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 33 0.94
30 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.44
Consensus pattern (28 bp):
TATTCTGTACAGCTTATTCTCTCGTACC
Found at i:8854780 original size:13 final size:13
Alignment explanation
Indices: 8854762--8854786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8854752 ACTTGAGAGC
8854762 TTCTCTCTCTAAA
1 TTCTCTCTCTAAA
8854775 TTCTCTCTCTAA
1 TTCTCTCTCTAA
8854787 TTATCTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCTCTCTCTAAA
Done.