Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 29 of 182
Found at i:9590410 original size:22 final size:20
Alignment explanation
Indices: 9590370--9590418 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
9590360 TAATTTAAAA
9590370 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
* *
9590390 TATATAAATTTATTAATATA
1 TATAAAAATTTATTAATATG
*
9590410 TGTAAAAAT
1 TATAAAAAT
9590419 AACTTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:9594543 original size:10 final size:10
Alignment explanation
Indices: 9594528--9594557 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
9594518 TTATTAATTT
9594528 AAAATTTAAA
1 AAAATTTAAA
9594538 AAAATTTAAA
1 AAAATTTAAA
9594548 AAAATTTAAA
1 AAAATTTAAA
9594558 GAGTCTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:9595525 original size:21 final size:22
Alignment explanation
Indices: 9595478--9595525 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
9595468 GAATTTTAAC
* *
9595478 AAATTCTTTTAAAATAAGAATT
1 AAATTCTTTAAAAATAAGAAAT
9595500 AAATTC-TTAAAAATAA-AAAT
1 AAATTCTTTAAAAATAAGAAAT
9595520 AGAATT
1 A-AATT
9595526 AAATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 13 0.57
22 6 0.26
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATTCTTTAAAAATAAGAAAT
Found at i:9596059 original size:29 final size:28
Alignment explanation
Indices: 9596010--9596085 Score: 107
Period size: 29 Copynumber: 2.7 Consensus size: 28
9596000 TTGAAACTCA
* * *
9596010 GAGTACTGAAAAATATTTTTGATGAGAT
1 GAGTTCTGAAAAATATCTTTGACGAGAT
9596038 GAGTTCTGAAAAAATATCTTTGACGAGAT
1 GAGTTCTG-AAAAATATCTTTGACGAGAT
*
9596067 GAGCTCTGAAAAATATCTT
1 GAGTTCTGAAAAATATCTT
9596086 GGGAATCTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 18 0.42
29 25 0.58
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (28 bp):
GAGTTCTGAAAAATATCTTTGACGAGAT
Found at i:9602626 original size:50 final size:49
Alignment explanation
Indices: 9602505--9602634 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 49
9602495 CTGGTACGCA
* ** * *
9602505 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACCATCCGATACACG
*
9602554 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACCATCCGATACACG
* *
9602604 TAGTATCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA
9602635 TCGAAGTTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 32 0.44
50 40 0.56
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACCATCCGATACACG
Found at i:9602688 original size:101 final size:99
Alignment explanation
Indices: 9602505--9602688 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
9602495 CTGGTACGCA
* * *
9602505 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTATACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
9602570 GTACTACACATGTGACCTAACCATCTGATACACG
66 GTACTACACATGCGACCTAACCATCTGATACACG
* * * ** *
9602604 TAGTATCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
9602669 TAGTACTATACATGCGACCT
64 TAGTACTACACATGCGACCT
9602689 CATAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 28 0.39
100 3 0.04
101 41 0.57
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCTAACCATCTGATACACG
Found at i:9605235 original size:44 final size:42
Alignment explanation
Indices: 9605089--9605261 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 42
9605079 GGAAAGCTCG
*** * * *
9605089 TACGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACGATGCCAACGTCCCAGATACGGTCTTACACGAAACCAAA
* * * * * *
9605131 TATCAATGAC-ACTATCGCAGATAGGGTCTTACATGAAACCAAA
1 TA-CGATGCCAAC-GTCCCAGATACGGTCTTACACGAAACCAAA
*
9605174 TACGATGCCAATGTCCCAGATACGGTCTTACACGTAAATCTCAAA
1 TACGATGCCAACGTCCCAGATACGGTCTTACACG-AAA-C-CAAA
* * *
9605219 T-CGATGCCAACGTCCCAGACT-TGGCCTTACACGAAATCAAA
1 TACGATGCCAACGTCCCAGA-TACGGTCTTACACGAAACCAAA
9605260 TA
1 TA
9605262 TCAGAAATCC
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 5 0.05
42 27 0.26
43 37 0.36
44 28 0.27
45 6 0.06
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
TACGATGCCAACGTCCCAGATACGGTCTTACACGAAACCAAA
Found at i:9605821 original size:18 final size:20
Alignment explanation
Indices: 9605784--9605822 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9605774 TCATTTTTAC
*
9605784 AATTCAGTCCAAAATACTCA
1 AATTCAGTCAAAAATACTCA
9605804 AATTCA-TCAAAAAT-CTCA
1 AATTCAGTCAAAAATACTCA
9605822 A
1 A
9605823 TACAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (20 bp):
AATTCAGTCAAAAATACTCA
Found at i:9606922 original size:11 final size:11
Alignment explanation
Indices: 9606901--9606933 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
9606891 ATATTTCTTG
9606901 AAAATATTAATA
1 AAAATA-TAATA
9606913 AAAATATAATA
1 AAAATATAATA
9606924 AAAATATAAT
1 AAAATATAAT
9606934 TTAGATAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATATAATA
Found at i:9609602 original size:20 final size:20
Alignment explanation
Indices: 9609577--9609626 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
9609567 TGGCTTAAAA
9609577 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
9609597 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
9609614 GTGGTAGTGGATT
1 TTGGTAGTGGATT
9609627 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:9614241 original size:20 final size:20
Alignment explanation
Indices: 9614216--9614265 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
9614206 TGGCTTAAAA
9614216 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
9614236 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
9614253 GTGGTAGTGGATT
1 TTGGTAGTGGATT
9614266 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:9622369 original size:26 final size:26
Alignment explanation
Indices: 9622337--9622390 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
9622327 ATTTTATTAC
9622337 TGCTTGATTTTTTATTTCATTTATGA
1 TGCTTGATTTTTTATTTCATTTATGA
9622363 TGCTTGATTTTTTATTTCATTTATGA
1 TGCTTGATTTTTTATTTCATTTATGA
9622389 TG
1 TG
9622391 TTTGCATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.07, G:0.13, T:0.61
Consensus pattern (26 bp):
TGCTTGATTTTTTATTTCATTTATGA
Found at i:9623999 original size:18 final size:18
Alignment explanation
Indices: 9623976--9624017 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9623966 GCCATGTGCA
*
9623976 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
9623994 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
9624012 TTTCCT
1 TATCCT
9624018 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:9626541 original size:27 final size:26
Alignment explanation
Indices: 9626504--9626598 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 26
9626494 AGCATGACTG
*
9626504 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGATAGAGTCA
*
9626530 CCAGATACAGATAATCGTGGTAGAGTCA
1 CCAGA-ACAGATAAT-GTGATAGAGTCA
*
9626558 CCAGAACAGATATATGTGATAGAGCCA
1 CCAGAACAGATA-ATGTGATAGAGTCA
*
9626585 CCAGATCAGATAAT
1 CCAGAACAGATAAT
9626599 TGTGGCATAG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.11
27 37 0.61
28 17 0.28
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGATAGAGTCA
Found at i:9626610 original size:27 final size:27
Alignment explanation
Indices: 9626504--9626615 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
9626494 AGCATGACTG
*
9626504 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGACAGAGCCA
* ** *
9626530 CCAGATACAGATAATCGTGGTAGAGTCA
1 CCAGA-ACAGATAATTGTGACAGAGCCA
*
9626558 CCAGAACAGAT-ATATGTGATAGAGCCA
1 CCAGAACAGATAAT-TGTGACAGAGCCA
* * *
9626585 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGACAGAGCCA
9626612 CCAG
1 CCAG
9626616 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.67
28 17 0.24
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGACAGAGCCA
Found at i:9626614 original size:54 final size:54
Alignment explanation
Indices: 9626504--9626615 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
9626494 AGCATGACTG
* * *
9626504 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
9626558 CCAGAACAGATATATGTGATAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
9626612 CCAG
1 CCAG
9626616 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:9628054 original size:25 final size:24
Alignment explanation
Indices: 9628021--9628077 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
9628011 AACTCTTGCT
9628021 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCT-C
9628047 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAGCTCCTAAATCTTCTC
9628071 CCTTATC
1 CCTTATC
9628078 CCCTCCTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 8 0.26
25 19 0.61
26 4 0.13
ACGTcount: A:0.19, C:0.39, G:0.05, T:0.37
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCTTCTC
Found at i:9628083 original size:24 final size:25
Alignment explanation
Indices: 9628021--9628084 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
9628011 AACTCTTGCT
*
9628021 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
*
9628047 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
9628071 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
9628085 TACTCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:9630513 original size:126 final size:126
Alignment explanation
Indices: 9630368--9630598 Score: 383
Period size: 126 Copynumber: 1.8 Consensus size: 126
9630358 TTATAACCTC
* *
9630368 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGTTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTCCAGAAATTTTGCTA
9630433 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
9630494 ATTTTTGC-ACGAACTACTGTCGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCT
1 ATTTTT-CTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTCCAGAAATTTTGCT
* *
9630558 GACAGTGCATCCTGCTTGAAGCGTTTTTGGCACTATTTGTT
65 AACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTT
9630599 AGCGTCCATG
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
126 96 0.99
127 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTCCAGAAATTTTGCTA
ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:9630654 original size:77 final size:78
Alignment explanation
Indices: 9630522--9630673 Score: 252
Period size: 77 Copynumber: 2.0 Consensus size: 78
9630512 GTCGCAAAAG
*
9630522 AGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTT-
1 AGCGTCCACGTGAGAGCTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTC
*
9630586 GGCACTATTTGTT
66 GACACTATTTGTT
* * *
9630599 AGCGTCCATGTGAGAGTTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGTTTGAAGCGTTTTTC
1 AGCGTCCACGTGAGAGCTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTC
9630664 GACACTATTT
66 GACACTATTT
9630674 TTCCAGAAAC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 60 0.87
78 9 0.13
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (78 bp):
AGCGTCCACGTGAGAGCTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTC
GACACTATTTGTT
Found at i:9631214 original size:15 final size:15
Alignment explanation
Indices: 9631191--9631220 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9631181 ACAAAACCCT
*
9631191 AACCCTAACCCTAAA
1 AACCATAACCCTAAA
9631206 AACCATAACCCTAAA
1 AACCATAACCCTAAA
9631221 TCAATTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (15 bp):
AACCATAACCCTAAA
Found at i:9631618 original size:2 final size:2
Alignment explanation
Indices: 9631611--9631636 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9631601 AAATTTAAAT
9631611 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
9631637 AAAGAAGAGG
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:9632162 original size:18 final size:17
Alignment explanation
Indices: 9632130--9632163 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9632120 GTTTGTTATA
*
9632130 TATCAAATTAGATTAGT
1 TATCAAATTACATTAGT
9632147 TATCAATATTACATTAG
1 TATCAA-ATTACATTAG
9632164 CATAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (17 bp):
TATCAAATTACATTAGT
Found at i:9632442 original size:2 final size:2
Alignment explanation
Indices: 9632429--9632464 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9632419 CAAGTTTAAT
*
9632429 TA TA TT 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 TA TA TA
9632465 AAAAGACACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9641148 original size:7 final size:8
Alignment explanation
Indices: 9641126--9641155 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
9641116 TCTCATGAAT
9641126 TCAAAAAA
1 TCAAAAAA
9641134 TCAAAAAAA
1 TC-AAAAAA
9641143 TCAAAAAA
1 TCAAAAAA
9641151 TCAAA
1 TCAAA
9641156 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:9651293 original size:3 final size:3
Alignment explanation
Indices: 9651281--9651328 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
9651271 TTTGAAAAAA
* *
9651281 AAG AAA AAG AAG AAG AAG -AG AAG AAGG AAG -AG AAG AAG AAG GAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG
9651325 AAG A
1 AAG A
9651329 GGAAAAATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9651310 original size:12 final size:11
Alignment explanation
Indices: 9651288--9651328 Score: 64
Period size: 12 Copynumber: 3.5 Consensus size: 11
9651278 AAAAAGAAAA
9651288 AGAAGAAGAAG
1 AGAAGAAGAAG
9651299 AGAAGAAGGAAG
1 AGAAGAA-GAAG
9651311 AGAAGAAGAAGG
1 AGAAGAAGAA-G
9651323 AGAAGA
1 AGAAGA
9651329 GGAAAAATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (11 bp):
AGAAGAAGAAG
Found at i:9652505 original size:21 final size:21
Alignment explanation
Indices: 9652481--9652520 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9652471 CCTTGTTGAG
9652481 TTGGGGTACCCTCTTGCTAAC
1 TTGGGGTACCCTCTTGCTAAC
* *
9652502 TTGGGGTAGCCTGTTGCTA
1 TTGGGGTACCCTCTTGCTA
9652521 GGTTCGGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.23, G:0.30, T:0.35
Consensus pattern (21 bp):
TTGGGGTACCCTCTTGCTAAC
Found at i:9653280 original size:43 final size:43
Alignment explanation
Indices: 9653184--9653361 Score: 229
Period size: 43 Copynumber: 4.2 Consensus size: 43
9653174 TAAAAAAAAC
* *
9653184 TCATTGCATGCATATTAAAAAATAGGCAACA-CATT--AACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* *
9653224 TTATTACATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* * *
9653267 TTATTGCATGCATATTACAAAATAGTCAACAACTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* * *
9653310 TCATTACATACATATTAAAAAA-AGTCAATAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
*
9653352 TCAGTGCATG
1 TCATTGCATG
9653362 TGGTCAGCAA
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
40 28 0.24
41 3 0.03
42 25 0.21
43 63 0.53
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
Found at i:9653360 original size:85 final size:83
Alignment explanation
Indices: 9653188--9653361 Score: 242
Period size: 85 Copynumber: 2.1 Consensus size: 83
9653178 AAAAACTCAT
* *
9653188 TGCATGCATATTAAAAAATAGGCAACACATTAACAATTATTACATGCATATTAAAAAATAGTCAA
1 TGCATGCATATTAAAAAATAGGCAACACATTAACAATCATTACATACATATTAAAAAATAGTCAA
* *
9653253 CAGCTTTCCAACAATTAT
66 CAGCTTTCCAACAATCAG
* * *
9653271 TGCATGCATATTACAAAATAGTCAACAACTTTCCAACAATCATTACATACATATTAAAAAA-AGT
1 TGCATGCATATTAAAAAATAGGCAAC-ACATT--AACAATCATTACATACATATTAAAAAATAGT
*
9653335 CAATAGCTTTCCAACAATCAG
63 CAACAGCTTTCCAACAATCAG
9653356 TGCATG
1 TGCATG
9653362 TGGTCAGCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
83 24 0.30
84 4 0.05
85 27 0.34
86 25 0.31
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (83 bp):
TGCATGCATATTAAAAAATAGGCAACACATTAACAATCATTACATACATATTAAAAAATAGTCAA
CAGCTTTCCAACAATCAG
Found at i:9655159 original size:47 final size:48
Alignment explanation
Indices: 9655088--9655208 Score: 181
Period size: 47 Copynumber: 2.5 Consensus size: 48
9655078 AATAAACATC
*
9655088 ATGGCAGATATACACAATAAACATCAGTTTGATAAT-GCATTCATACA
1 ATGGCAGATATACACAATAAACATCAATTTGATAATCGCATTCATACA
*
9655135 ATGGCAGATATACACAATACACATCAATTTGATAATCGCATTCATACA
1 ATGGCAGATATACACAATAAACATCAATTTGATAATCGCATTCATACA
* * * *
9655183 ATGGTAGAAACAAACAATAAACATCA
1 ATGGCAGATATACACAATAAACATCA
9655209 TGCACATGGC
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
47 34 0.52
48 32 0.48
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (48 bp):
ATGGCAGATATACACAATAAACATCAATTTGATAATCGCATTCATACA
Found at i:9655200 original size:48 final size:47
Alignment explanation
Indices: 9655101--9655208 Score: 153
Period size: 48 Copynumber: 2.3 Consensus size: 47
9655091 GCAGATATAC
* * * *
9655101 ACAATAAACATCAGTTTGATAATGCATTCATACAATGGCAGATATAC
1 ACAATAAACATCAATTTGATAATGCATTCATACAATGGCAGAAACAA
* *
9655148 ACAATACACATCAATTTGATAATCGCATTCATACAATGGTAGAAACAA
1 ACAATAAACATCAATTTGATAAT-GCATTCATACAATGGCAGAAACAA
9655196 ACAATAAACATCA
1 ACAATAAACATCA
9655209 TGCACATGGC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 21 0.40
48 32 0.60
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (47 bp):
ACAATAAACATCAATTTGATAATGCATTCATACAATGGCAGAAACAA
Found at i:9655268 original size:6 final size:6
Alignment explanation
Indices: 9655245--9655340 Score: 84
Period size: 6 Copynumber: 16.0 Consensus size: 6
9655235 AAATAACCCT
* * * * * * *
9655245 AAATCG AAATCT AGATCA AAATCA AAATCA AATTCT AAATCT AAATCG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* ** * *
9655293 AGATCA AAATTG GAATCA AAATTA AAATCA AAATCA AAATCA AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
9655341 GTGAGTGTTT
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.23
Consensus pattern (6 bp):
AAATCA
Found at i:9655310 original size:36 final size:37
Alignment explanation
Indices: 9655243--9655340 Score: 101
Period size: 36 Copynumber: 2.7 Consensus size: 37
9655233 TGAAATAACC
* *
9655243 CTAAATCGAAATCTAGATCAAAATCAAAATC-AAATT
1 CTAAATCAAAATCAAGATCAAAATCAAAATCAAAATT
* * ***
9655279 CTAAATCTAAATCGAGATCAAAATTGGAATCAAAATT
1 CTAAATCAAAATCAAGATCAAAATCAAAATCAAAATT
* *
9655316 -AAAATCAAAATCAAAATCAAAATCA
1 CTAAATCAAAATCAAGATCAAAATCA
9655341 GTGAGTGTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
36 45 0.90
37 5 0.10
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.23
Consensus pattern (37 bp):
CTAAATCAAAATCAAGATCAAAATCAAAATCAAAATT
Found at i:9655373 original size:12 final size:12
Alignment explanation
Indices: 9655352--9655410 Score: 82
Period size: 12 Copynumber: 4.9 Consensus size: 12
9655342 TGAGTGTTTT
*
9655352 AAAATTGAAATC
1 AAAATCGAAATC
9655364 AAAATCGAAATC
1 AAAATCGAAATC
9655376 AAAATCGAAATC
1 AAAATCGAAATC
* *
9655388 AGAATCGAAATT
1 AAAATCGAAATC
*
9655400 AAAATTGAAAT
1 AAAATCGAAAT
9655411 AGAAACAACC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.22
Consensus pattern (12 bp):
AAAATCGAAATC
Found at i:9655379 original size:24 final size:24
Alignment explanation
Indices: 9655352--9655410 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
9655342 TGAGTGTTTT
9655352 AAAATTGAAATCAAAATCGAAATC
1 AAAATTGAAATCAAAATCGAAATC
* * *
9655376 AAAATCGAAATCAGAATCGAAATT
1 AAAATTGAAATCAAAATCGAAATC
9655400 AAAATTGAAAT
1 AAAATTGAAAT
9655411 AGAAACAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.22
Consensus pattern (24 bp):
AAAATTGAAATCAAAATCGAAATC
Found at i:9655402 original size:48 final size:47
Alignment explanation
Indices: 9655259--9655410 Score: 133
Period size: 48 Copynumber: 3.0 Consensus size: 47
9655249 CGAAATCTAG
* * * * *
9655259 ATCAAAATCAAAATCAAATTCTAAATCTAAATCGAGATCAAAATTGGA
1 ATCAAAATCAAAATCAAAATCAAAATC-AAATCGAAATTAAAATTGAA
* **
9655307 ATCAAAATTAAAATCAAAATCAAAATCAAAATCAGTGAGTGTTTTAAAATTGAA
1 ATCAAAATCAAAATCAAAATCAAAATC-AAATC---GA---AATTAAAATTGAA
* *
9655361 ATCAAAATCGAAATCAAAATCGAAATCAGAATCGAAATTAAAATTGAA
1 ATCAAAATCAAAATCAAAATCAAAATCA-AATCGAAATTAAAATTGAA
9655409 AT
1 AT
9655411 AGAAACAACC
Statistics
Matches: 84, Mismatches: 13, Indels: 14
0.76 0.12 0.13
Matches are distributed among these distances:
48 42 0.50
51 4 0.05
53 1 0.01
54 37 0.44
ACGTcount: A:0.54, C:0.12, G:0.09, T:0.25
Consensus pattern (47 bp):
ATCAAAATCAAAATCAAAATCAAAATCAAATCGAAATTAAAATTGAA
Found at i:9655886 original size:21 final size:21
Alignment explanation
Indices: 9655860--9655899 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9655850 AACGTGGCAA
9655860 GTTAACTTGCCACATCAACTG
1 GTTAACTTGCCACATCAACTG
*
9655881 GTTAACTTGCCACGTCAAC
1 GTTAACTTGCCACATCAAC
9655900 AATCCCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAACTG
Found at i:9662798 original size:13 final size:14
Alignment explanation
Indices: 9662782--9662817 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
9662772 CAATCTCATA
9662782 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
9662795 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
9662808 TCTC-ATTTCA
1 TCTCAATTTCA
9662818 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:9662807 original size:18 final size:19
Alignment explanation
Indices: 9662769--9662809 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
9662759 TGGTTCATGT
9662769 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
9662788 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
9662806 TTTC
1 TTTC
9662810 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:9666012 original size:40 final size:39
Alignment explanation
Indices: 9665914--9666136 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
9665904 TCCTCGTTCA
* * * *
9665914 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
9665953 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
9665992 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
9666032 AAAGGCCTTCAGGG-CTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTC-GGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
9666072 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
9666113 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
9666137 CATCATTCGA
Statistics
Matches: 157, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 38 0.24
40 102 0.65
41 15 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:9666481 original size:29 final size:29
Alignment explanation
Indices: 9666442--9666520 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
9666432 CTTAATAATC
* *
9666442 AACCACGCACACTTAGTTCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
9666472 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
9666501 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
9666521 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:9667730 original size:32 final size:32
Alignment explanation
Indices: 9667688--9667750 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
9667678 CCCAACATTG
9667688 ATAGACCTCTCAACCATAATGGCATACAACAT
1 ATAGACCTCTCAACCATAATGGCATACAACAT
*
9667720 ATAGAGCTCTCAACCATAATGGCATACAACA
1 ATAGACCTCTCAACCATAATGGCATACAACA
9667751 AAAGCTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.21
Consensus pattern (32 bp):
ATAGACCTCTCAACCATAATGGCATACAACAT
Found at i:9674842 original size:55 final size:55
Alignment explanation
Indices: 9674776--9674881 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 55
9674766 AATTCACAGT
* * *
9674776 AAAACCTATGGATTTATAATTTTAACAATTTAGTCCCTAACTAAAATTTCATTAA
1 AAAACCCATGGATTTATAATTTTAACAATTTAATCCCCAACTAAAATTTCATTAA
*
9674831 AAAACCCATGGATTTATAATTTTAACAATTTAATCCCCAACTACAATTTCA
1 AAAACCCATGGATTTATAATTTTAACAATTTAATCCCCAACTAAAATTTCA
9674882 CCAAAAAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.36
Consensus pattern (55 bp):
AAAACCCATGGATTTATAATTTTAACAATTTAATCCCCAACTAAAATTTCATTAA
Found at i:9680617 original size:17 final size:17
Alignment explanation
Indices: 9680597--9680633 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
9680587 TGCACTAATC
*
9680597 ATGAAAATGTAATGACA
1 ATGAAAATGCAATGACA
9680614 ATGAAAATGCAATGACA
1 ATGAAAATGCAATGACA
9680631 ATG
1 ATG
9680634 TATACTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (17 bp):
ATGAAAATGCAATGACA
Found at i:9695163 original size:40 final size:40
Alignment explanation
Indices: 9695118--9695325 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
9695108 AAGGAGTTTC
*
9695118 GAAGTACAAATAGGGGCACGTATATGTATTCAAGGGTACT
1 GAAGTACAAATAGGGGCACGTATATGCATTCAAGGGTACT
*
9695158 GAAGTAC-AATCAGGGGCACGTATATGCATTCAAGGGTACC
1 GAAGTACAAAT-AGGGGCACGTATATGCATTCAAGGGTACT
* * * * *
9695198 AAAGTATAAATAAGGGCACGTATGTGCATT-TAGGGTACT
1 GAAGTACAAATAGGGGCACGTATATGCATTCAAGGGTACT
** * *
9695237 GAAGTACAAGCAGGGGCACGTATGTGCATTCAGGGGTA-T
1 GAAGTACAAATAGGGGCACGTATATGCATTCAAGGGTACT
* * * * *
9695276 CGAAGTACAAAAAGGGGCACGTATCTACATTCAGGGGTACC
1 -GAAGTACAAATAGGGGCACGTATATGCATTCAAGGGTACT
9695317 GAAGTACAA
1 GAAGTACAA
9695326 TCATGAGCAC
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
39 36 0.25
40 104 0.73
41 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (40 bp):
GAAGTACAAATAGGGGCACGTATATGCATTCAAGGGTACT
Found at i:9697369 original size:28 final size:27
Alignment explanation
Indices: 9697306--9697457 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
9697296 GTATTAAGTC
* * *
9697306 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
9697333 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
9697361 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
9697388 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
9697416 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
9697443 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9697458 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:9697390 original size:55 final size:55
Alignment explanation
Indices: 9697306--9697457 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
9697296 GTATTAAGTC
* * *
9697306 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
9697361 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
9697416 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
9697458 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:9702717 original size:91 final size:86
Alignment explanation
Indices: 9702605--9702910 Score: 221
Period size: 91 Copynumber: 3.6 Consensus size: 86
9702595 TAAAAAAGTG
*
9702605 AATAAAATCTATTTCGGGATTTATTCCCCCCGTTCAACAGATTTTATTCCAATTTTGATTTTTAT
1 AATAAAATCTGTTTCGGGATTTATTCCCCCCGTTCAACAGATTTTATTCC-ATTTTGA-TTTTAT
* ***
9702670 TTCCAAAAATGAGTTTTTTAAATTAA
64 TTCC-AAAACGAG-AAATTAAATT-A
* * ** * * * *
9702696 AATAAAATATGTTTCGGGATTTGTTCCCGTCGTTCAGCGGATTTTATT-CTTTTTTATTTTATTT
1 AATAAAATCTGTTTCGGGATTTATTCCCCCCGTTCAACAGATTTTATTCCATTTTGATTTTATTT
*
9702760 CCAAAACGAGAAATTAAATTG
66 CCAAAACGAGAAATTAAATTA
* * * * * * * *
9702781 AATAAAATCTGTTTCGAGATTTACT-CCCCTGTTTAACAAGATTTTATTCTATATT-AATTTGTT
1 AATAAAATCTGTTTCGGGATTTATTCCCCCCGTTCAAC-AGATTTTATTCCATTTTGATTTTATT
* *
9702844 TCC-AAACGA-AGACTT-AATCA
65 TCCAAAACGAGA-AATTAAATTA
* * * ** * *
9702864 AAT-AATTTTGTTTCAGGATTTATTCCTGCCGTTTAACAGAATTTATT
1 AATAAAATCTGTTTCGGGATTTATTCCCCCCGTTCAACAGATTTTATT
9702911 TTGATTTAAT
Statistics
Matches: 170, Mismatches: 41, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
82 25 0.15
83 16 0.09
84 16 0.09
85 39 0.23
86 10 0.06
87 7 0.04
88 10 0.06
89 5 0.03
90 1 0.01
91 41 0.24
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (86 bp):
AATAAAATCTGTTTCGGGATTTATTCCCCCCGTTCAACAGATTTTATTCCATTTTGATTTTATTT
CCAAAACGAGAAATTAAATTA
Found at i:9703860 original size:29 final size:31
Alignment explanation
Indices: 9703818--9703894 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
9703808 TTTACCTCAG
*
9703818 GTTACATTTTAGTCACTTATGTT-T-GAAAT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
* *
9703847 GTTACATTTTAGTCACTTACGTTATCGTATT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
*
9703878 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
9703895 GAGCTGTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCGAAAT
Found at i:9704255 original size:21 final size:21
Alignment explanation
Indices: 9704229--9704272 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9704219 AAAAAAAAGA
9704229 TTAAAAAATCTTTATTCTGGG
1 TTAAAAAATCTTTATTCTGGG
9704250 TTAAAAAATCTTTATTCTGGG
1 TTAAAAAATCTTTATTCTGGG
9704271 TT
1 TT
9704273 TTCGTTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (21 bp):
TTAAAAAATCTTTATTCTGGG
Found at i:9705095 original size:10 final size:10
Alignment explanation
Indices: 9705082--9705126 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
9705072 GAAAAGAATG
9705082 GAAAATAAAA
1 GAAAATAAAA
9705092 GAAAA-AAAA
1 GAAAATAAAA
9705101 GAAAATTAAAA
1 GAAAA-TAAAA
*
9705112 GAACATAAAA
1 GAAAATAAAA
9705122 GAAAA
1 GAAAA
9705127 GAATTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 9 0.29
10 14 0.45
11 8 0.26
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (10 bp):
GAAAATAAAA
Found at i:9705096 original size:20 final size:20
Alignment explanation
Indices: 9705082--9705126 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
9705072 GAAAAGAATG
9705082 GAAAA-TAAAAGAAAAAAAA
1 GAAAATTAAAAGAAAAAAAA
*
9705101 GAAAATTAAAAGAACATAAAA
1 GAAAATTAAAAGAA-AAAAAA
9705122 GAAAA
1 GAAAA
9705127 GAATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (20 bp):
GAAAATTAAAAGAAAAAAAA
Found at i:9705126 original size:15 final size:15
Alignment explanation
Indices: 9705082--9705129 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
9705072 GAAAAGAATG
9705082 GAAAATAAAAGAAAA
1 GAAAATAAAAGAAAA
* *
9705097 -AAAAGAAAATTAAAA
1 GAAAATAAAA-GAAAA
*
9705112 GAACATAAAAGAAAA
1 GAAAATAAAAGAAAA
9705127 GAA
1 GAA
9705130 TTAAATTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 8 0.31
15 11 0.42
16 7 0.27
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.08
Consensus pattern (15 bp):
GAAAATAAAAGAAAA
Found at i:9705351 original size:31 final size:29
Alignment explanation
Indices: 9705287--9705355 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
9705277 ATGATAACGT
** *
9705287 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATGACAAACAA
*
9705316 AAGTGACTAAAATGTAACCTGAGACAAACAA
1 AAGTGACTAAAATGTAACAT--GACAAACAA
9705347 AAGTGACTA
1 AAGTGACTA
9705356 TTTTAATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGACAAACAA
Found at i:9713369 original size:11 final size:11
Alignment explanation
Indices: 9713353--9713381 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9713343 GAATACCATC
9713353 TTGAAATTGAA
1 TTGAAATTGAA
9713364 TTGAAATTGAA
1 TTGAAATTGAA
9713375 TT-AAATT
1 TTGAAATT
9713382 TATGGGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (11 bp):
TTGAAATTGAA
Found at i:9713596 original size:93 final size:93
Alignment explanation
Indices: 9713412--9713598 Score: 275
Period size: 93 Copynumber: 2.0 Consensus size: 93
9713402 CCCATATATT
** * *
9713412 TTTTTTTCAACAAATTTGAGACATAGTGAAATCTTTTTATGCGAAATGAGATGACAACCCAAGCA
1 TTTTTTTCAACAAATTTGAGACATAGCCAAATCCTTTTACGCGAAATGAGATGACAACCCAAGCA
* * *
9713477 CCTCACCCCGGTTACTTAATTCGACATG
66 CCTCACCCCAGCTACTAAATTCGACATG
* *
9713505 TTTTTTTCAACAAATTTGAGACATAGCCAAATCCTTTTACGCGAAATGAGATGGCAACTCAAGCA
1 TTTTTTTCAACAAATTTGAGACATAGCCAAATCCTTTTACGCGAAATGAGATGACAACCCAAGCA
* *
9713570 CCTCACCCTAGCTACTAAATTTGACATG
66 CCTCACCCCAGCTACTAAATTCGACATG
9713598 T
1 T
9713599 CCCTAATCAA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 83 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (93 bp):
TTTTTTTCAACAAATTTGAGACATAGCCAAATCCTTTTACGCGAAATGAGATGACAACCCAAGCA
CCTCACCCCAGCTACTAAATTCGACATG
Found at i:9717304 original size:16 final size:18
Alignment explanation
Indices: 9717273--9717308 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
9717263 TTCTTTGGGC
9717273 CCCTTTCTTCTTCTTTTT
1 CCCTTTCTTCTTCTTTTT
9717291 CCCTTT-TT-TTCTTTTT
1 CCCTTTCTTCTTCTTTTT
9717307 CC
1 CC
9717309 TTCTTTCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
CCCTTTCTTCTTCTTTTT
Found at i:9720971 original size:65 final size:66
Alignment explanation
Indices: 9720866--9720993 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 66
9720856 TATCATTGTT
* *
9720866 TTTAAATATTTTTCAATAAGCATATTTATACTCTAATTTTTAGTTTCTTGATAAATTATATATAC
1 TTTAAATATTTTTCAATAAGCATATTTATAATCTAATTTTTAGTTTCTTCATAAATTATATATAC
9720931 A
66 A
*
9720932 TTTAAATATTTTTCACAT-A-TATATTTATAATCTAATTTTTAGTTTCTTCATAAATTATATAT
1 TTTAAATATTTTTCA-ATAAGCATATTTATAATCTAATTTTTAGTTTCTTCATAAATTATATAT
9720994 TATTTTGGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
65 40 0.69
66 16 0.28
67 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (66 bp):
TTTAAATATTTTTCAATAAGCATATTTATAATCTAATTTTTAGTTTCTTCATAAATTATATATAC
A
Found at i:9721074 original size:16 final size:16
Alignment explanation
Indices: 9721034--9721078 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
9721024 TATATGCAAA
9721034 TATATCTAAGATATATT
1 TATATCTAA-ATATATT
*
9721051 CATA--TAAATATATT
1 TATATCTAAATATATT
9721065 TATATCTAAATATA
1 TATATCTAAATATA
9721079 AGTTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 8 0.33
17 3 0.12
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (16 bp):
TATATCTAAATATATT
Found at i:9731732 original size:21 final size:21
Alignment explanation
Indices: 9731708--9731758 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
9731698 TTTAATAAGC
* *
9731708 TTTCATTTTAATAATTTATTT
1 TTTCATTTTAAAAATTAATTT
9731729 TTTCATTTTAAAAATTAATTT
1 TTTCATTTTAAAAATTAATTT
9731750 TATT-ATTTT
1 T-TTCATTTT
9731759 TCTAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTCATTTTAAAAATTAATTT
Found at i:9735170 original size:24 final size:24
Alignment explanation
Indices: 9735143--9735192 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
9735133 CTAGAACAGT
* *
9735143 TTCAAAAGGAAATGCAGGAGCAGC
1 TTCAAAAGCAAATGAAGGAGCAGC
* *
9735167 TTCAACAGCAAATGAATGAGCAGC
1 TTCAAAAGCAAATGAAGGAGCAGC
9735191 TT
1 TT
9735193 GAGAAAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (24 bp):
TTCAAAAGCAAATGAAGGAGCAGC
Found at i:9738135 original size:14 final size:13
Alignment explanation
Indices: 9738109--9738151 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
9738099 AAGCCAGACA
9738109 AAGGATAGAGAAAG
1 AAGGATAG-GAAAG
*
9738123 AAGGAGTTGGAAAG
1 AAGGA-TAGGAAAG
9738137 AA-GATAGGAAAG
1 AAGGATAGGAAAG
9738149 AAG
1 AAG
9738152 AAGGGCGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 12 0.48
15 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.37, T:0.09
Consensus pattern (13 bp):
AAGGATAGGAAAG
Found at i:9743426 original size:44 final size:43
Alignment explanation
Indices: 9743330--9744016 Score: 184
Period size: 44 Copynumber: 15.8 Consensus size: 43
9743320 AAGATGGCAA
* ** * *
9743330 ATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTAAAGCC-GATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTG--G
*
9743374 ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TGG
* * *** *
9743418 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGTATCT--
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTGG
* ****
9743457 ATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGAAAG
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTGG
* * * *
9743503 -TTTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGA--TGG
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCTGG
* * * * * *
9743544 CAAATTTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAGCC-GATA
1 ---ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTG--G
* * * *
9743591 ATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAACCTTAGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-T-GG
* * * * * **
9743636 -TCTTATCTCCCTAAAGCTGTAGTGGAGCAGACTAAGTAAGCACG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTGG
* * ** * *
9743680 -TCTTATC-CTTCAGAAGTTATAGT-GAGGCAGACTGAAGA--TGG
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCTGG
* * *
9743721 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATT-AAAGCTGATA
1 ---ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTG--G
* ** * *
9743768 ATCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAACCTTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TGG
* * * *** * *
9743812 ATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-TCGCATCTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTGG
* * * **
9743853 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTGG
* * * * *
9743897 -TTTTATC-CTCCTGAAGTTACAGT-GAGGCAGA-CAGAACATGG
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAACCTGG
* * * *
9743938 CAAATCTTATCGCCCTGAAGTTGCAGTGGAGCGGATTAAAACTTTAG
1 ---ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC-CTGG
* * *
9743985 ATCTTATCTCTCTGAAGTTACAG-AGAGCAGAT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
9744017 CGCATCTAGT
Statistics
Matches: 468, Mismatches: 119, Indels: 113
0.67 0.17 0.16
Matches are distributed among these distances:
39 1 0.00
40 40 0.09
41 23 0.05
42 8 0.02
43 34 0.07
44 261 0.56
45 80 0.17
46 18 0.04
47 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTGG
Found at i:9743531 original size:217 final size:217
Alignment explanation
Indices: 9743155--9743651 Score: 764
Period size: 217 Copynumber: 2.3 Consensus size: 217
9743145 TCGTTGGCCA
* *
9743155 ATAATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAAACCTTGGATCTTAT-TCTCTAAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTAAAGT
* ** *
9743219 TGCAGAGAGTATCTCGGATCTAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTAAGTAAGCA
66 TGCAGAGAGCAGATCGGATCTAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTAAGTAAGAA
*
9743284 AGTTTTATCCTCCTGAAGTTGCAATGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTAAAGTT
131 AGTTTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTT
* *
9743349 GCAGTGGAATAGATTAAAGCCG
196 GCAGTAGAACAGATTAAAGCCG
* *
9743371 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTAAAGT
* * * *
9743436 TGCAGAGAGCAGATCGTATCTATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGAA
66 TGCAGAGAGCAGATCGGATCTAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTAAGTAAGAA
* * *
9743501 AGTTTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTAAAGTT
131 AGTTTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTT
* *
9743566 GTAGTAGAGCAGATTAAAGCCG
196 GCAGTAGAACAGATTAAAGCCG
* * *
9743588 ATAATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAACCTTAGG-TCTTATCTCCCTAAAG
1 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTT-GGATCTTATCTCTCTAAAG
9743652 CTGTAGTGGA
Statistics
Matches: 254, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
216 51 0.20
217 201 0.79
218 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (217 bp):
ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTAAAGT
TGCAGAGAGCAGATCGGATCTAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTAAGTAAGAA
AGTTTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTT
GCAGTAGAACAGATTAAAGCCG
Found at i:9743567 original size:45 final size:45
Alignment explanation
Indices: 9743461--9743578 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
9743451 GTATCTATTC
*
9743461 TTATCTCCCTGAAGTTGCAGTG-GAGCAGACTAAGTAAGAAAGTT
1 TTATCTCCCTGAAGTTGTAGTGAGAGCAGACTAAGTAAGAAAGTT
*
9743505 TTATC-CTCCTGAAGTTGTAGTGAG-GCAGACTGAAG-ATGGCAAA-TT
1 TTATCTC-CCTGAAGTTGTAGTGAGAGCAGACT-AAGTA-AG-AAAGTT
*
9743550 TTATCTCCCTAAAGTTGTAGT-AGAGCAGA
1 TTATCTCCCTGAAGTTGTAGTGAGAGCAGA
9743579 TTAAAGCCGA
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
43 1 0.02
44 29 0.45
45 30 0.47
46 4 0.06
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGTAGTGAGAGCAGACTAAGTAAGAAAGTT
Found at i:9743688 original size:177 final size:177
Alignment explanation
Indices: 9743459--9743821 Score: 546
Period size: 177 Copynumber: 2.1 Consensus size: 177
9743449 TCGTATCTAT
* * * * *
9743459 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGAAAGTTTTATCCTCCTGAAGTTGTA
1 TCTTATCTCCCTAAAGCTGCAGTGGAGCAGACTAAGTAAGAAAGTCTTATCCTCCAGAAGTTATA
* *
9743524 GTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAGCCGA
66 GTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCGA
* * *
9743589 TAATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAACCTTAGG
131 TAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACCTTAGA
* * * *
9743636 TCTTATCTCCCTAAAGCTGTAGTGGAGCAGACTAAGTAAGCACGTCTTATCCTTCAGAAGTTATA
1 TCTTATCTCCCTAAAGCTGCAGTGGAGCAGACTAAGTAAGAAAGTCTTATCCTCCAGAAGTTATA
* * * *
9743701 GTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTGA
66 GTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCGA
* *
9743766 TAATCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAACCTTAGA
131 TAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACCTTAGA
9743813 TCTTATCTC
1 TCTTATCTC
9743822 TCTGAAGTTA
Statistics
Matches: 166, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
177 166 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (177 bp):
TCTTATCTCCCTAAAGCTGCAGTGGAGCAGACTAAGTAAGAAAGTCTTATCCTCCAGAAGTTATA
GTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCGA
TAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACCTTAGA
Found at i:9743977 original size:394 final size:394
Alignment explanation
Indices: 9743241--9744003 Score: 1141
Period size: 394 Copynumber: 1.9 Consensus size: 394
9743231 CTCGGATCTA
* * * * *
9743241 GTCTTATCTCCCTGAAGTTGCAATGGAACAGACTAAGTAAGCAAGTTTTATCCTCCTGAAGTTGC
1 GTCTTATCTCCCTAAAGCTGCAATGGAACAGACTAAGTAAGCAAGTCTTATCCTCCAGAAGTTAC
* *
9743306 AATGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTAAAGCCG
66 AATGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCCG
* *
9743371 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGT
131 ATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* * * *
9743436 TGCAGAGAGCAGATCGTATCTATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGAA
196 TACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGAA
** * * * *
9743501 AGTTTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTAAAGTT
261 AGTTTTATCCTCCTGAAGTTACAGTGAGGCAGACAGAACATGGCAAATCTTATCGCCCTAAAGTT
* *
9743566 GTAGTAGAGCAGATTAAAGCCGATA-ATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAAC
326 GCAGTAGAGCAGATTAAA-ACGATAGATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAAC
9743630 CTTAG
390 CTTAG
* * * * * *
9743635 GTCTTATCTCCCTAAAGCTGTAGTGGAGCAGACTAAGTAAGCACGTCTTATCCTTCAGAAGTTAT
1 GTCTTATCTCCCTAAAGCTGCAATGGAACAGACTAAGTAAGCAAGTCTTATCCTCCAGAAGTTAC
* * * * *
9743700 AGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTG
66 AATGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCCG
* *
9743765 ATAATCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
131 ATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGT
*
9743830 TACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCA
196 TACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGAA
*
9743895 AGTTTTATCCTCCTGAAGTTACAGTGAGGCAGACAGAACATGGCAAATCTTATCGCCCTGAAGTT
261 AGTTTTATCCTCCTGAAGTTACAGTGAGGCAGACAGAACATGGCAAATCTTATCGCCCTAAAGTT
* * ** *
9743960 GCAGTGGAGCGGATTAAAACTTTAGATCTTATCTCTCTGAAGTT
326 GCAGTAGAGCAGATTAAAACGATAGATCCTATCTCTCTGAAGTT
9744004 ACAGAGAGCA
Statistics
Matches: 327, Mismatches: 41, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
393 3 0.01
394 324 0.99
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (394 bp):
GTCTTATCTCCCTAAAGCTGCAATGGAACAGACTAAGTAAGCAAGTCTTATCCTCCAGAAGTTAC
AATGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCCG
ATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGT
TACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGAA
AGTTTTATCCTCCTGAAGTTACAGTGAGGCAGACAGAACATGGCAAATCTTATCGCCCTAAAGTT
GCAGTAGAGCAGATTAAAACGATAGATCCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAACC
TTAG
Found at i:9743992 original size:89 final size:83
Alignment explanation
Indices: 9743767--9744022 Score: 268
Period size: 89 Copynumber: 3.0 Consensus size: 83
9743757 TAAAGCTGAT
* **
9743767 AATCCTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-CTTAGATCTTATCTCTCTGAAGTTA
*
9743832 CAGAGAGCAGATCGCATCT
65 CAGAGAGCAGATCGCATCA
* * * * * *
9743851 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAG-TTTTATC-CTCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AA-CTTAGATCTTATCTCT-CTGAAG
*
9743913 TTACAGTGAGGCAGA-CAGAACATGGCA
62 TTACAGAGA-GCAGATC-G--CAT--CA
*
9743940 AATCTTATCGCCCTGAAGTTGCAGTGGAGCGGATTAAAACTTTAGATCTTATCTCTCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC-TTAGATCTTATCTCTCTGAAGTTA
9744005 CAGAGAGCAGATCGCATC
65 CAGAGAGCAGATCGCATC
9744023 TAGTTGCAGA
Statistics
Matches: 138, Mismatches: 20, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
83 2 0.01
84 52 0.38
85 8 0.06
86 7 0.05
87 5 0.04
88 8 0.06
89 54 0.39
90 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (83 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTTAGATCTTATCTCTCTGAAGTTAC
AGAGAGCAGATCGCATCA
Found at i:9744032 original size:24 final size:24
Alignment explanation
Indices: 9744000--9744048 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9743990 ATCTCTCTGA
9744000 AGTTACAGAGAGCAGATCGCATCT
1 AGTTACAGAGAGCAGATCGCATCT
* *
9744024 AGTTGCAGAGAGCAGATCTCATCT
1 AGTTACAGAGAGCAGATCGCATCT
9744048 A
1 A
9744049 ATCTTATCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (24 bp):
AGTTACAGAGAGCAGATCGCATCT
Found at i:9744101 original size:44 final size:44
Alignment explanation
Indices: 9744047--9744385 Score: 242
Period size: 44 Copynumber: 7.8 Consensus size: 44
9744037 AGATCTCATC
* *
9744047 TAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTAAAACTGA
1 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGA
* * *
9744091 TAATCCTATCTCCCTGAAGTTGCAGTTGAGCGGATTAAAAC--A
1 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGA
* ** * *** *
9744133 TTAGATATTATCTCTTTGAAGTTGCAG-AGAGCAGA-TCGCA-T-C
1 -TA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGA
* * *
9744175 TAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAA--G-
1 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACTGA
* *
9744218 TAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGAA-GGCA
1 TAA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-AACTG-A
* *
9744265 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA
1 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGA
* *
9744308 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCT--
1 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CTGA
* *
9744351 TAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
9744386 CACATCTAGT
Statistics
Matches: 234, Mismatches: 40, Indels: 43
0.74 0.13 0.14
Matches are distributed among these distances:
40 18 0.08
41 9 0.04
42 4 0.02
43 24 0.10
44 144 0.62
45 30 0.13
46 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGA
Found at i:9744327 original size:325 final size:325
Alignment explanation
Indices: 9743723--9744328 Score: 980
Period size: 325 Copynumber: 1.9 Consensus size: 325
9743713 GAAGATGGCA
* * *
9743723 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTGATAATCCTATCTCCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACTGATAATCCTATCTCCCTGAAGTTA
* * *
9743788 TAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAG
66 CAGTGGAGCGGATTAAAACATTAGATATTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAG
*
9743853 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTTTTATCCTCCTGAAGTTACA
131 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACA
* * **
9743918 GTGAGGCAGACAGAACATGGCAAATCTTATCGCCCTGAAGTTGCAGTGGAGCGGATTAAAACTTT
196 GTGAGGCAGACAGAACAAGGCAAATCTTATCGCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAT
* *
9743983 AGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTTGCAGAGAGCAGATCTCATCT
261 AGATCCTATCTCCCTGAAGTTACAGAGAGCAGATCGCATCTAGTTGCAGAGAGCAGATCTCATCT
* *
9744048 AATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTAAAACTGATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACTGATAATCCTATCTCCCTGAAGTTA
* * *
9744113 CAGTTGAGCGGATTAAAACATTAGATATTATCTCTTTGAAGTTGCAGAGAGCAGATCGCATCTAG
66 CAGTGGAGCGGATTAAAACATTAGATATTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAG
* *
9744178 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCTTATCCTCCTGAAGTTGCA
131 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACA
* * * *
9744243 GTGAGGCAGACTGAAGAAGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA
196 GTGAGGCAGACAGAACAAGGCAAATCTTATCGCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACGA
9744308 TA-ATCCTATCTCCCTGAAGTT
260 TAGATCCTATCTCCCTGAAGTT
9744329 GCAGTGGAGC
Statistics
Matches: 256, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
325 253 0.99
326 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (325 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACTGATAATCCTATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAAACATTAGATATTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAG
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACA
GTGAGGCAGACAGAACAAGGCAAATCTTATCGCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAT
AGATCCTATCTCCCTGAAGTTACAGAGAGCAGATCGCATCTAGTTGCAGAGAGCAGATCTCATCT
Found at i:9744401 original size:24 final size:24
Alignment explanation
Indices: 9744369--9744419 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
9744359 ATCTCTCTGA
9744369 AGTTGCAGAGAGCAGATCACATCT
1 AGTTGCAGAGAGCAGATCACATCT
**
9744393 AGTTGCAGAGAGCAGATTGCATCT
1 AGTTGCAGAGAGCAGATCACATCT
9744417 AGT
1 AGT
9744420 CTTATCTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (24 bp):
AGTTGCAGAGAGCAGATCACATCT
Found at i:9746617 original size:15 final size:15
Alignment explanation
Indices: 9746597--9746627 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9746587 ATATTATTTC
9746597 TATGCCATTATTGTA
1 TATGCCATTATTGTA
*
9746612 TATGCCATTGTTGTA
1 TATGCCATTATTGTA
9746627 T
1 T
9746628 TTGTGACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (15 bp):
TATGCCATTATTGTA
Found at i:9748338 original size:31 final size:30
Alignment explanation
Indices: 9748268--9748341 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
9748258 TAATTTGGTT
* *
9748268 CAATCATATACATGAAACTTTGATTTGATG
1 CAATCATACACATAAAACTTTGATTTGATG
*
9748298 CAATCATACACATAAAACTTTGATTTTGATT
1 CAATCATACACATAAAACTTTGA-TTTGATG
* *
9748329 TAATTATACACAT
1 CAATCATACACAT
9748342 TTAAAGAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 21 0.55
31 17 0.45
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (30 bp):
CAATCATACACATAAAACTTTGATTTGATG
Found at i:9754910 original size:18 final size:18
Alignment explanation
Indices: 9754887--9754921 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9754877 TTACATATAA
9754887 AAATAATAATTATATTTG
1 AAATAATAATTATATTTG
* *
9754905 AAATAATTATTTTATTT
1 AAATAATAATTATATTT
9754922 TATAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATAATAATTATATTTG
Found at i:9755388 original size:103 final size:105
Alignment explanation
Indices: 9755274--9755480 Score: 328
Period size: 103 Copynumber: 2.0 Consensus size: 105
9755264 GAAATTGTGA
* *
9755274 TAAAATTATTATTATTTAATAATTTAATTAAGGAAGCTAATATGCTAAAAACATTCA-TAAAAAA
1 TAAAATAATTATTATTTAATAATTTAACTAAGGAAGCTAATATGCTAAAAACATTCATTAAAAAA
9755338 A-AAGAAACTTAAAACAACATGAAATAAAAAATATAAATG
66 AGAAGAAACTTAAAACAACATGAAATAAAAAATATAAATG
* * * *
9755377 TAAAATAATTATTATTTAATCATTTAACTAAGGAAGGTGATATGTTAAAAACATTCATTAAAAAA
1 TAAAATAATTATTATTTAATAATTTAACTAAGGAAGCTAATATGCTAAAAACATTCATTAAAAAA
* *
9755442 AGAAGCAGCTTAAAACAACATGAAATAAAAAATATAAAT
66 AGAAGAAACTTAAAACAACATGAAATAAAAAATATAAAT
9755481 ATGAGTGGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 51 0.54
104 8 0.09
105 35 0.37
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (105 bp):
TAAAATAATTATTATTTAATAATTTAACTAAGGAAGCTAATATGCTAAAAACATTCATTAAAAAA
AGAAGAAACTTAAAACAACATGAAATAAAAAATATAAATG
Found at i:9756330 original size:7 final size:7
Alignment explanation
Indices: 9756318--9756397 Score: 160
Period size: 7 Copynumber: 11.4 Consensus size: 7
9756308 ATCTATCCTA
9756318 AATTTTC
1 AATTTTC
9756325 AATTTTC
1 AATTTTC
9756332 AATTTTC
1 AATTTTC
9756339 AATTTTC
1 AATTTTC
9756346 AATTTTC
1 AATTTTC
9756353 AATTTTC
1 AATTTTC
9756360 AATTTTC
1 AATTTTC
9756367 AATTTTC
1 AATTTTC
9756374 AATTTTC
1 AATTTTC
9756381 AATTTTC
1 AATTTTC
9756388 AATTTTC
1 AATTTTC
9756395 AAT
1 AAT
9756398 CCTCAATTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 73 1.00
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTC
Found at i:9757779 original size:27 final size:26
Alignment explanation
Indices: 9757724--9757789 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
9757714 CATATCTATC
** *
9757724 CATATAAACATTT-CATAAACCACTT
1 CATATAATTATTTCCATAAACCAATT
9757749 CATATAATTATTTCCATATAACCAATT
1 CATATAATTATTTCCATA-AACCAATT
9757776 CATATAATTATTTC
1 CATATAATTATTTC
9757790 GTTTATCTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 11 0.31
26 4 0.11
27 21 0.58
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (26 bp):
CATATAATTATTTCCATAAACCAATT
Found at i:9757868 original size:27 final size:27
Alignment explanation
Indices: 9757817--9757869 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
9757807 TAACTGATTC
* * *
9757817 ATATAACCACTCCATATATCTATTTCT
1 ATATAACCAATCCATATAGCCATTTCT
*
9757844 ATATAACCAATTCATATAGCCATTTC
1 ATATAACCAATCCATATAGCCATTTC
9757870 AAAGTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (27 bp):
ATATAACCAATCCATATAGCCATTTCT
Found at i:9757870 original size:13 final size:13
Alignment explanation
Indices: 9757724--9757870 Score: 64
Period size: 13 Copynumber: 11.2 Consensus size: 13
9757714 CATATCTATC
*
9757724 CATATAAACATTT
1 CATATAACCATTT
*
9757737 CATA-AACCACTT
1 CATATAACCATTT
**
9757749 CATATAATTATTT
1 CATATAACCATTT
*
9757762 CCATATAACCAATT
1 -CATATAACCATTT
**
9757776 CATATAATTATTT
1 CATATAACCATTT
* * * **
9757789 CGTTTATCTGTTT
1 CATATAACCATTT
* *
9757802 CCGTATAACTGA-TT
1 -CATATAAC-CATTT
* *
9757816 CATATAACCACTC
1 CATATAACCATTT
* *
9757829 CATATATCTATTT
1 CATATAACCATTT
*
9757842 CTATATAACCAATT
1 C-ATATAACCATTT
*
9757856 CATATAGCCATTT
1 CATATAACCATTT
9757869 CA
1 CA
9757871 AAGTATTAAC
Statistics
Matches: 96, Mismatches: 32, Indels: 12
0.69 0.23 0.09
Matches are distributed among these distances:
12 11 0.11
13 57 0.59
14 28 0.29
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.40
Consensus pattern (13 bp):
CATATAACCATTT
Found at i:9759812 original size:63 final size:63
Alignment explanation
Indices: 9759712--9759892 Score: 195
Period size: 63 Copynumber: 2.9 Consensus size: 63
9759702 TCTAACCCAA
* * * * *
9759712 TTTATTTGACACAAGCATCACAACACGCAC-ACTCATTCCTCGCATCAACACCTTCAGCTCCAG
1 TTTATTTTACACAAGCACCACAACACACACAAC-CATTCCTCGCATCAACACCTTCAACACCAG
* * * ** **
9759775 TTTATTTTACACAAGTACCACAGCACACACAACCATTCTTTACATCAACAAATTCAACACCAG
1 TTTATTTTACACAAGCACCACAACACACACAACCATTCCTCGCATCAACACCTTCAACACCAG
* **
9759838 TTTATTTTACACAAGCACCATAACACACACAATAATTCC-CTGCATCAACACCTTC
1 TTTATTTTACACAAGCACCACAACACACACAACCATTCCTC-GCATCAACACCTTC
9759893 TTTAGGGATA
Statistics
Matches: 94, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
63 92 0.98
64 2 0.02
ACGTcount: A:0.35, C:0.33, G:0.06, T:0.25
Consensus pattern (63 bp):
TTTATTTTACACAAGCACCACAACACACACAACCATTCCTCGCATCAACACCTTCAACACCAG
Found at i:9761467 original size:39 final size:40
Alignment explanation
Indices: 9761310--9761534 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
9761300 GCTCCTCGTT
* *
9761310 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
9761350 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
9761390 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
9761430 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
9761469 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
9761510 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
9761535 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:9761494 original size:119 final size:120
Alignment explanation
Indices: 9761312--9761534 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
9761302 TCCTCGTTCA
*
9761312 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
9761377 TTAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTCAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
9761432 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
9761494 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTCAGCACAAAGCCTTCGGGACTTAACCCGGA
9761535 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 68 0.76
120 18 0.20
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTCAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:9765591 original size:24 final size:24
Alignment explanation
Indices: 9765546--9765609 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
9765536 GCTTAGATTT
**
9765546 ATTATGTATT-TGTTTTCAAATTC
1 ATTATGTATTATCATTTCAAATTC
*
9765569 ATTATGTATTATCATTTCAAATTT
1 ATTATGTATTATCATTTCAAATTC
* * *
9765593 GTTATGCATTATTATTT
1 ATTATGTATTATCATTT
9765610 TATTTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 10 0.29
24 24 0.71
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTATGTATTATCATTTCAAATTC
Found at i:9766015 original size:43 final size:43
Alignment explanation
Indices: 9765930--9766057 Score: 123
Period size: 43 Copynumber: 3.0 Consensus size: 43
9765920 CGCTAAAAAG
* * **
9765930 CGCCGCTAAAGGCCATGTTCTTTAGCGATGCTTCTCTTACAAA
1 CGCCGCTAAAAGCCATGTTCTTTAGCGACGCTTCTCAAACAAA
* * * *
9765973 CGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTTTGAAACAAA
1 CGCCGCTAAAAGCCATGTTCTTTAGCGACGCTTCTCAAACAAA
* ** * *
9766016 CGCCGCT-AAAGAACATGACCTTTAGCGACGCTTTTCTAACAA
1 CGCCGCTAAAAG-CCATGTTCTTTAGCGACGCTTCTCAAACAA
9766058 TCGCTACTAA
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 4 0.06
43 66 0.94
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
CGCCGCTAAAAGCCATGTTCTTTAGCGACGCTTCTCAAACAAA
Found at i:9766068 original size:43 final size:43
Alignment explanation
Indices: 9765992--9766093 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
9765982 AAGTCATGTT
* * * *
9765992 CTTTAGCGGCGCTTTTGAAACAAACGCCGCTAAAGAACATGAC
1 CTTTAGCGACGCTTTTCAAACAAACGCCACTAAAGAACATAAC
* * * *
9766035 CTTTAGCGACGCTTTTCTAACAATCGCTACTAAAGAGCATAAC
1 CTTTAGCGACGCTTTTCAAACAAACGCCACTAAAGAACATAAC
9766078 CTTTAGCGACGCTTTT
1 CTTTAGCGACGCTTTT
9766094 TATCACAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
CTTTAGCGACGCTTTTCAAACAAACGCCACTAAAGAACATAAC
Found at i:9768109 original size:15 final size:16
Alignment explanation
Indices: 9768079--9768109 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9768069 ACAAATGGAT
9768079 ATATAAAACAATTTAA
1 ATATAAAACAATTTAA
9768095 ATATAAAAC-ATTTAA
1 ATATAAAACAATTTAA
9768110 TAGAACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATAAAACAATTTAA
Found at i:9770468 original size:141 final size:138
Alignment explanation
Indices: 9770258--9770661 Score: 614
Period size: 132 Copynumber: 3.0 Consensus size: 138
9770248 ATAAATTGAT
* * * *
9770258 TTATTTTTTGCGACGTTTTT-ATAAAAAACGCTGC-AAAAA--A-TTCAATTTGAACAAAATGAC
1 TTATCTTTTGCGGCGTTTTTCAT-AGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGAC
9770318 GTCGTTTTACTATGCTAAATTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTAAAAAAAA
65 GTCGTTTTACTATGCTAAATTTTTTTTATAAATTGATTTATTTTTT-CGGCGTTTTT--AAAAAA
9770383 CGCCGCTATTGC
127 CGCCGCTATTGC
9770395 TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
1 TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
*
9770460 TCGTTTTACTATGCTAAATTTTTTTCATAAATTGATTTATTTTTT--GC---TTT-AAAAACGCC
66 TCGTTTTACTATGCTAAATTTTTTTTATAAATTGATTTATTTTTTCGGCGTTTTTAAAAAACGCC
9770519 GCTATTGC
131 GCTATTGC
9770527 TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
1 TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
*
9770592 TCGTTTTACTATGCTAAATTTTTTTTATAAATTGATTTATTTTTTTCGGCGTTTTTCATAGAAAC
66 TCGTTTTACTATGCTAAATTTTTTTTATAAATTGATTTA-TTTTTTCGGCGTTTTT-A-AAAAAC
9770657 GCCGC
128 GCCGC
9770662 AAAAAAATTA
Statistics
Matches: 246, Mismatches: 7, Indels: 24
0.89 0.03 0.09
Matches are distributed among these distances:
132 120 0.49
133 6 0.02
135 5 0.02
137 27 0.11
138 12 0.05
140 1 0.00
141 75 0.30
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (138 bp):
TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
TCGTTTTACTATGCTAAATTTTTTTTATAAATTGATTTATTTTTTCGGCGTTTTTAAAAAACGCC
GCTATTGC
Found at i:9770717 original size:101 final size:101
Alignment explanation
Indices: 9770527--9770748 Score: 410
Period size: 101 Copynumber: 2.2 Consensus size: 101
9770517 CCGCTATTGC
*
9770527 TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
1 TTATTTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
9770592 TCGTTTTACTATGCTAAATTTTTTTTATAAATTGAT
66 TCGTTTTACTATGCTAAATTTTTTTTATAAATTGAT
*
9770628 TTATTTTTTTCGGCGTTTTTCATAGAAACGCCGCAAAAAAATTATTTCAATTTGAACAAAATGAC
1 TTATTTTTTGCGGCGTTTTTCATAGAAACGCCGC-AAAAAATTATTTCAATTTGAACAAAATGAC
9770693 GTCGTTTTACTATGCT-AATTTTTTTTATAAATTGAT
65 GTCGTTTTACTATGCTAAATTTTTTTTATAAATTGAT
9770729 TTATTTTTTGCGGCGTTTTT
1 TTATTTTTTGCGGCGTTTTT
9770749 AAAAAACGTC
Statistics
Matches: 117, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
101 71 0.61
102 46 0.39
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (101 bp):
TTATTTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
TCGTTTTACTATGCTAAATTTTTTTTATAAATTGAT
Found at i:9770822 original size:240 final size:233
Alignment explanation
Indices: 9770395--9770849 Score: 750
Period size: 240 Copynumber: 1.9 Consensus size: 233
9770385 CCGCTATTGC
9770395 TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
1 TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
9770460 TCGTTTTACTATGCTAAATTTTTTTCATAAATTGATTTATTTTTTGCTTTAAAAACGCCGCTATT
66 TCGTTTTACTATGCTAAATTTTTTTCATAAATTGATTTATTTTTTGCTTTAAAAACGCCGCTATT
*
9770525 GCTTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGA
131 GCTTATCTTTTGCGGCATTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGA
**
9770590 CGTCGTTTTACTATGCTAAATTTTTTTTATAAATTGAT
196 CACCGTTTTACTATGCTAAATTTTTTTTATAAATTGAT
* *
9770628 TTATTTTTTTCGGCGTTTTTCATAGAAACGCCGCAAAAAAATTATTTCAATTTGAACAAAATGAC
1 TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGC-AAAAAATTATTTCAATTTGAACAAAATGAC
*
9770693 GTCGTTTTACTATGCT-AATTTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTAAAAAACG
65 GTCGTTTTACTATGCTAAATTTTTTTCATAAATTGATTTATTTTTT---GC---TTT-AAAAACG
* *
9770757 TCGCTATTGCTTATCTTTTGCGGCATTTTTCATAGAAACGCCGCAAAAAATTATTTCATTTTGAA
123 CCGCTATTGCTTATCTTTTGCGGCATTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAA
*
9770822 CAAAATGACACCGTTTTACTGTGCTAAA
188 CAAAATGACACCGTTTTACTATGCTAAA
9770850 ATTATTTCAT
Statistics
Matches: 205, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
233 60 0.29
234 46 0.22
236 2 0.01
239 3 0.01
240 94 0.46
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (233 bp):
TTATCTTTTGCGGCGTTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGACG
TCGTTTTACTATGCTAAATTTTTTTCATAAATTGATTTATTTTTTGCTTTAAAAACGCCGCTATT
GCTTATCTTTTGCGGCATTTTTCATAGAAACGCCGCAAAAAATTATTTCAATTTGAACAAAATGA
CACCGTTTTACTATGCTAAATTTTTTTTATAAATTGAT
Found at i:9770853 original size:44 final size:44
Alignment explanation
Indices: 9770803--9770894 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
9770793 AACGCCGCAA
*
9770803 AAAATTATTTCATTTTGAACAAAATGACACCGTTTTACTGTGCT
1 AAAATTATTTCATTTTGAACAAAATGACACCGTTTTACTATGCT
* *
9770847 AAAATTATTTCATTTTGAATAAAATGACACCGTTTTGCTATGCT
1 AAAATTATTTCATTTTGAACAAAATGACACCGTTTTACTATGCT
9770891 AAAA
1 AAAA
9770895 AATTTTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (44 bp):
AAAATTATTTCATTTTGAACAAAATGACACCGTTTTACTATGCT
Found at i:9771359 original size:22 final size:22
Alignment explanation
Indices: 9771311--9771376 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
9771301 AACCTTAAAT
* *
9771311 CCCTAA-CTCTTAACCCCTAAT
1 CCCTAACCTCTAAACCCCTAAC
**
9771332 GTCTAACCTCTAAACCCCTAAC
1 CCCTAACCTCTAAACCCCTAAC
*
9771354 CCCTAAACCT-TAAATCCC-AAC
1 CCCT-AACCTCTAAACCCCTAAC
9771375 CC
1 CC
9771377 TTAAACCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 9 0.25
22 22 0.61
23 5 0.14
ACGTcount: A:0.32, C:0.44, G:0.02, T:0.23
Consensus pattern (22 bp):
CCCTAACCTCTAAACCCCTAAC
Found at i:9771381 original size:21 final size:22
Alignment explanation
Indices: 9771336--9771394 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
9771326 CCTAATGTCT
*
9771336 AACCTCTAAACCCCTAACCCCTA
1 AACCT-TAAATCCCTAACCCCTA
*
9771359 AACCTTAAATCCC-AACCCTTA
1 AACCTTAAATCCCTAACCCCTA
*
9771380 AACCAT-AATCCCTAA
1 AACCTTAAATCCCTAA
9771395 ATCCACACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 6 0.19
21 14 0.44
22 7 0.22
23 5 0.16
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (22 bp):
AACCTTAAATCCCTAACCCCTA
Found at i:9771822 original size:114 final size:114
Alignment explanation
Indices: 9771622--9772114 Score: 783
Period size: 114 Copynumber: 4.3 Consensus size: 114
9771612 AAGTACCCTT
*
9771622 AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGACGCTTCCCCAAAAACGCCGCTAAAGACCTGAG
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAG
*
9771687 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCAGA
66 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGA
*
9771736 AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAATGCCGCTAAAGACCTGAG
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAG
*
9771801 CATTAGCGGCGCTTTCTTAAAAACGCCGTTAAATCCCCGAAAGCTCAGA
66 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGA
* * * *
9771850 AAACGGCGTCGTTAGGCTTAGG-TTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAAACCTGAG
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAG
* *
9771914 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCAAA
66 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGA
* * * *
9771963 AAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGTGCTTTCCCAAAAAACGTCGCTAAAGACCTGA
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGC-TTCCCCAAAAACGCCGCTAAAGACCTGA
* * * * *
9772028 GCATTAGCAGCGCTTTCTTAAAAACGTCGCTAAATCCCCGAGAGCGCATA
65 GCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGA
*
9772078 AAACGACGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTT
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTT
9772115 TTCTGAAAAT
Statistics
Matches: 352, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
113 108 0.31
114 155 0.44
115 89 0.25
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (114 bp):
AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAG
CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGA
Found at i:9776435 original size:7 final size:7
Alignment explanation
Indices: 9776425--9776453 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
9776415 AATCAAAATC
9776425 AAAAGAA
1 AAAAGAA
9776432 AAAAGAA
1 AAAAGAA
9776439 AAAAGAA
1 AAAAGAA
9776446 AAAA-AA
1 AAAAGAA
9776452 AA
1 AA
9776454 TCAAAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:9776453 original size:37 final size:35
Alignment explanation
Indices: 9776396--9776464 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
9776386 GATCCAATTC
* *
9776396 AAAAAAAAAAAGGAAGAAAAATCAAAATCAAAAGA
1 AAAAAAAAAAAGAAAAAAAAATCAAAATCAAAAGA
9776431 AAAAAGAAAAAAGAAAAAAAAAATCAAAATCAAA
1 AAAAA-AAAAAAG-AAAAAAAAATCAAAATCAAA
9776465 GTCAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 5 0.17
36 7 0.23
37 18 0.60
ACGTcount: A:0.80, C:0.06, G:0.09, T:0.06
Consensus pattern (35 bp):
AAAAAAAAAAAGAAAAAAAAATCAAAATCAAAAGA
Found at i:9776472 original size:37 final size:36
Alignment explanation
Indices: 9776394--9776473 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 36
9776384 CAGATCCAAT
* *
9776394 TCAAAAAAAAAAAGGAAGAAAAATCAAAATCAAAAG
1 TCAAAAAAAAAAAGAAAAAAAAATCAAAATCAAAAG
*
9776430 -AAAAAAGAAAAAAGAAAAAAAAAATCAAAATC-AAAG
1 TCAAAAA-AAAAAAG-AAAAAAAAATCAAAATCAAAAG
9776466 TCAAAAAA
1 TCAAAAAA
9776474 TGAAAATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
35 5 0.14
36 12 0.32
37 20 0.54
ACGTcount: A:0.76, C:0.07, G:0.09, T:0.07
Consensus pattern (36 bp):
TCAAAAAAAAAAAGAAAAAAAAATCAAAATCAAAAG
Found at i:9776486 original size:21 final size:20
Alignment explanation
Indices: 9776412--9776500 Score: 53
Period size: 21 Copynumber: 4.5 Consensus size: 20
9776402 AAAAAGGAAG
*
9776412 AAAAATCAAAATCAAAAG--A
1 AAAAATGAAAAT-AAAAGACA
*
9776431 AAAAA-GAAAA-AAGAA-AAA
1 AAAAATGAAAATAA-AAGACA
* * *
9776449 AAAAATCAAAATCAAAGTCA
1 AAAAATGAAAATAAAAGACA
*
9776469 AAAAATGAAAATGAAAAGAGA
1 AAAAATGAAAAT-AAAAGACA
*
9776490 AAAAACGAAAA
1 AAAAATGAAAA
9776501 GGAGAGGCCG
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
16 2 0.04
17 2 0.04
18 10 0.19
19 11 0.21
20 13 0.25
21 15 0.28
ACGTcount: A:0.75, C:0.07, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAAATGAAAATAAAAGACA
Found at i:9777316 original size:7 final size:7
Alignment explanation
Indices: 9777304--9777367 Score: 89
Period size: 7 Copynumber: 9.3 Consensus size: 7
9777294 CGAAAAAATG
9777304 TGAAAAA
1 TGAAAAA
9777311 TGAAAAA
1 TGAAAAA
9777318 TGAAAAA
1 TGAAAAA
9777325 TGAAAAA
1 TGAAAAA
9777332 TG-AAAA
1 TGAAAAA
9777338 T-AAAGAA
1 TGAAA-AA
9777345 TGAAAAA
1 TGAAAAA
9777352 TGAAAAA
1 TGAAAAA
9777359 -GTAAAAA
1 TG-AAAAA
9777366 TG
1 TG
9777368 GAGAGGCTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
6 8 0.15
7 40 0.77
8 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:9777346 original size:27 final size:27
Alignment explanation
Indices: 9777307--9777367 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 27
9777297 AAAAATGTGA
9777307 AAAATGAAAAATGAAAAATGAAAAATG
1 AAAATGAAAAATGAAAAATGAAAAATG
*
9777334 AAAAT-AAAGAATGAAAAATGAAAAAGTA
1 AAAATGAAA-AATGAAAAATGAAAAA-TG
9777362 AAAATG
1 AAAATG
9777368 GAGAGGCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.10
27 21 0.70
28 6 0.20
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATGAAAAATGAAAAATGAAAAATG
Found at i:9778981 original size:129 final size:129
Alignment explanation
Indices: 9778617--9779497 Score: 1402
Period size: 129 Copynumber: 6.8 Consensus size: 129
9778607 GTAAATATAG
* * *
9778617 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCGAAGATGGTGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* *
9778682 AGGAAGCATATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTG
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
*
9778746 CAGATCTTGTCTCCCTAAGCAGTAGCAGTAGCAGAGCAGATCAAAGACGGCGAATCTTATCTTCA
1 CAGATCTTGTCTCCCTAAGCAGTAGC----G--GAGCAGATCGAAGACGGCGAATCTTATCTTCA
**
9778811 AGTGTAAGGAAATAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGGA
60 AGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGGA
9778876 AATTA
125 AATTA
* *
9778881 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGAGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
*
9778946 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
* *
9779010 CAGATCTTGTCTCCCTAAGTAGTAGCGGAACAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* * *
9779075 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTGGAATGGGTTAGGGAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
* *
9779139 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGAGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* * *
9779204 ATGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTAGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
* *
9779268 TAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* * * *
9779333 AGGAAACAGATTTAAGCCATAAGTCCTATATCCCTGGTCAACAGTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
* * * * *
9779397 CAGATCTTGTCTCCATAAGTAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTCATGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* *
9779462 AGGAAGCAGATTTAAGCCACAAATCCTATCTCCCTG
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTG
9779498 AAGTTGTAGT
Statistics
Matches: 696, Mismatches: 50, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
129 574 0.82
131 1 0.00
133 1 0.00
135 120 0.17
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (129 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGGAAATTA
Found at i:9779620 original size:44 final size:44
Alignment explanation
Indices: 9779569--9779902 Score: 178
Period size: 44 Copynumber: 7.6 Consensus size: 44
9779559 ATCGCATCAG
*
9779569 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTGAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTGAGCAA
* * *
9779613 GTCTTATCCCCCTGAAGTGGCAGTGGGGCAGA-TCGAAGATG-GCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-G-AG-TGAGCAA
* * * *
9779658 ATCTTATCCCCCT-AAGGTTGCAGTGGAGCAGATTGAAGTCGA-TAA
1 GTCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACTG-AGT-GAGCAA
* * * *
9779703 -TCCTATCTCCCTGAAGTTGCAGCGGAGCAGAAT-A-T-AGTAATA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTGAG-CA-A
* * * *
9779745 GATGTTATCTCTCTGAAGTTGCAGT--A-CAG--TG-GATCGCATCAG
1 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAG-T-G-AGCAA
* ** *
9779787 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGAAAACAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTGAGCAA
* ** * * * *
9779831 GTCTTATCCCCCTGAAGTCACAATGGGGCAGACCGAAG-AAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AGTGAGCAA
*
9779875 ATCTTATCTCCCTG-AGCTTGCAGTGGAG
1 GTCTTATCTCCCTGAAG-TTGCAGTGGAG
9779903 TAGATTGAAG
Statistics
Matches: 222, Mismatches: 41, Indels: 54
0.70 0.13 0.17
Matches are distributed among these distances:
39 2 0.01
41 27 0.12
42 4 0.02
43 5 0.02
44 135 0.61
45 43 0.19
46 5 0.02
47 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTGAGCAA
Found at i:9779681 original size:45 final size:45
Alignment explanation
Indices: 9779570--9779696 Score: 145
Period size: 45 Copynumber: 2.8 Consensus size: 45
9779560 TCGCATCAGG
* * *
9779570 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-CTG-AGTGAGCAAG
1 TCTTATCCCCCTAAGGTTGCAGTGGAGCAGATC-GAAGTGAGCAAA
* *
9779614 TCTTATCCCCCTGAA-GTGGCAGTGGGGCAGATCGAAGATG-GCAAA
1 TCTTATCCCCCT-AAGGTTGCAGTGGAGCAGATCGAAG-TGAGCAAA
*
9779659 TCTTATCCCCCTAAGGTTGCAGTGGAGCAGATTGAAGT
1 TCTTATCCCCCTAAGGTTGCAGTGGAGCAGATCGAAGT
9779697 CGATAATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
44 29 0.41
45 39 0.56
46 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (45 bp):
TCTTATCCCCCTAAGGTTGCAGTGGAGCAGATCGAAGTGAGCAAA
Found at i:9779715 original size:89 final size:89
Alignment explanation
Indices: 9779570--9779733 Score: 215
Period size: 89 Copynumber: 1.8 Consensus size: 89
9779560 TCGCATCAGG
* * *
9779570 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTGAGCAAGTCTTATCCCCCTGAAGTGGCA
1 TCTTATCCCCCTAAGGTTGCAGTGGAGCAGACTGAGTGAGCAAGTCCTATCCCCCTGAAGTGGCA
* *
9779635 GTGGGGCAGATCGAAGATGGCAAA
66 GCGGAGCAGATCGAAGATGGCAAA
* * * *
9779659 TCTTATCCCCCTAAGGTTGCAGTGGAGCAGATTGAAGTCGA-TAA-TCCTATCTCCCTGAAGTTG
1 TCTTATCCCCCTAAGGTTGCAGTGGAGCAGACTG-AGT-GAGCAAGTCCTATCCCCCTGAAGTGG
9779722 CAGCGGAGCAGA
64 CAGCGGAGCAGA
9779734 ATATAGTAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 57 0.89
90 5 0.08
91 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (89 bp):
TCTTATCCCCCTAAGGTTGCAGTGGAGCAGACTGAGTGAGCAAGTCCTATCCCCCTGAAGTGGCA
GCGGAGCAGATCGAAGATGGCAAA
Found at i:9780002 original size:217 final size:219
Alignment explanation
Indices: 9779483--9780008 Score: 772
Period size: 218 Copynumber: 2.4 Consensus size: 219
9779473 TTAAGCCACA
9779483 AATCCTATCTCCCTGAAGTTGTAGTGGAGCG-GATTAAAGTAATAGATCTTATCTCTCTAAAGTT
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGAGATTAAAGTAATAGATCTTATCTCTCTAAAGTT
* ** *
9779547 GCAGTACAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTGAGCA
66 GCAGTACAGTGGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGAAAACA
** * * * *
9779612 AGTCTTATCCCCCTGAAGTGGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCCCCCTAAGGTT
131 AGTCTTATCCCCCTGAAGTCACAATGGGGCAGACCGAAGATAGCAAATCTTATCCCCCTAAGCTT
9779677 GCAGTGGAGCAGATTGAAGTCGAT
196 GCAGTGGAGCAGATTGAAGTCGAT
* * * * * *
9779701 AATCCTATCTCCCTGAAGTTGCAGCGGAGC-AGAATATAGTAATAGATGTTATCTCTCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGAGATTAAAGTAATAGATCTTATCTCTCTAAAGTT
*
9779765 GCAGTACAGTGGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGAAAACA
66 GCAGTACAGTGGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGAAAACA
* *
9779830 AGTCTTATCCCCCTGAAGTCACAATGGGGCAGACCGAAGA-AGCAAATCTTATCTCCCTGAGCTT
131 AGTCTTATCCCCCTGAAGTCACAATGGGGCAGACCGAAGATAGCAAATCTTATCCCCCTAAGCTT
*
9779894 GCAGTGGAGTAGATTGAAGTCGAT
196 GCAGTGGAGCAGATTGAAGTCGAT
* ** *
9779918 AATCCTATCTCCCTAAAGTAATAGTGGAGCGAG-TTAAAGTAATAGATCTTATCTCTCTCAAGTT
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGAGATTAAAGTAATAGATCTTATCTCTCTAAAGTT
* ** *
9779982 GCAGTATAGCAGATCGCATCAAGTCTT
66 GCAGTACAGTGGATCGCATCAGGTCTT
9780009 GCCGACTAGA
Statistics
Matches: 273, Mismatches: 33, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
217 118 0.43
218 155 0.57
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (219 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGCGAGATTAAAGTAATAGATCTTATCTCTCTAAAGTT
GCAGTACAGTGGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGAAAACA
AGTCTTATCCCCCTGAAGTCACAATGGGGCAGACCGAAGATAGCAAATCTTATCCCCCTAAGCTT
GCAGTGGAGCAGATTGAAGTCGAT
Found at i:9783250 original size:9 final size:9
Alignment explanation
Indices: 9783232--9783268 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9783222 TATATTTTGA
9783232 TATTCGAAT
1 TATTCGAAT
*
9783241 TATTCAAAT
1 TATTCGAAT
*
9783250 TATTCGAGT
1 TATTCGAAT
9783259 TATTCGAAT
1 TATTCGAAT
9783268 T
1 T
9783269 CAAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9787963 original size:16 final size:15
Alignment explanation
Indices: 9787938--9787971 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
9787928 ATAAGTAGTG
9787938 ATAAAATATATATAAT
1 ATAAAATATAT-TAAT
*
9787954 ATAAAGTATATTAAT
1 ATAAAATATATTAAT
9787969 ATA
1 ATA
9787972 TTACTTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
ATAAAATATATTAAT
Found at i:9793149 original size:23 final size:23
Alignment explanation
Indices: 9793116--9793483 Score: 200
Period size: 23 Copynumber: 15.9 Consensus size: 23
9793106 AGAAATTGAG
9793116 CAGCATGTATATACCAATTTGGA
1 CAGCATGTATATACCAATTTGGA
* *
9793139 CAGCACT-TATACACAAAATTT-GA
1 CAGCA-TGTATATAC-CAATTTGGA
* *
9793162 CAGCATGTATATACAAAATTGGA
1 CAGCATGTATATACCAATTTGGA
* * * * *
9793185 CAGGATTTTTATTCACCAAAATTGGG
1 CAGCATGTATA-T-ACC-AATTTGGA
* * * *
9793211 CAGCATATATGTAGCAATTTGTA
1 CAGCATGTATATACCAATTTGGA
* *
9793234 CAGCACT-TATACACAAAATTT-GA
1 CAGCA-TGTATATAC-CAATTTGGA
* *
9793257 CAGCATGTATAT-CCAAAATTGGG
1 CAGCATGTATATACC-AATTTGGA
*
9793280 CAGCATATATATACCAATTTGGA
1 CAGCATGTATATACCAATTTGGA
* *
9793303 CAGCA-CT-TATACACAAATTGGA
1 CAGCATGTATATAC-CAATTTGGA
* * *
9793325 CAACATGTATATACAAAATTGGA
1 CAGCATGTATATACCAATTTGGA
* * *
9793348 CAGCATTTAT-TCACCAAAATTGGG
1 CAGCATGTATAT-ACC-AATTTGGA
* * * *
9793372 CAGCATATATGTAGCAATTTGTA
1 CAGCATGTATATACCAATTTGGA
* *
9793395 CAGCACT-TATACACAAAATTT-GA
1 CAGCA-TGTATATAC-CAATTTGGA
*
9793418 CAGCATGTATATACAAAATTT-GA
1 CAGCATGTATATAC-CAATTTGGA
* * *
9793441 CAGCATGTATATACAAAATTGGG
1 CAGCATGTATATACCAATTTGGA
*
9793464 CAGCATATATATACCAATTT
1 CAGCATGTATATACCAATTT
9793484 TAGACCATTA
Statistics
Matches: 268, Mismatches: 54, Indels: 46
0.73 0.15 0.12
Matches are distributed among these distances:
21 5 0.02
22 32 0.12
23 167 0.62
24 46 0.17
25 4 0.01
26 14 0.05
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (23 bp):
CAGCATGTATATACCAATTTGGA
Found at i:9793287 original size:69 final size:68
Alignment explanation
Indices: 9793200--9793353 Score: 236
Period size: 69 Copynumber: 2.2 Consensus size: 68
9793190 TTTTTATTCA
* * * * *
9793200 CCAAAATTGGGCAGCATATATGTAGCAATTTGTACAGCACTTATACACAAAATTTGACAGCATGT
1 CCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACAC-AAATTGGACAACATGT
9793265 ATAT
65 ATAT
9793269 CCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAATTGGACAACATGTA
1 CCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAATTGGACAACATGTA
9793334 TAT
66 TAT
* *
9793337 ACAAAATTGGACAGCAT
1 CCAAAATTGGGCAGCAT
9793354 TTATTCACCA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
68 33 0.42
69 45 0.58
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (68 bp):
CCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAATTGGACAACATGTA
TAT
Found at i:9793371 original size:92 final size:92
Alignment explanation
Indices: 9793241--9793483 Score: 366
Period size: 92 Copynumber: 2.6 Consensus size: 92
9793231 GTACAGCACT
*
9793241 TATACACAAAATTTGACAGCATGTA-TATCCAAAATTGGGCAGCATATATATACCAATTTGGACA
1 TATATACAAAATTTGACAGCATGTATTA-CCAAAATTGGGCAGCATATATATACCAATTTGGACA
9793305 GCACTTATACAC-AAATTGGACAACATG
65 GCACTTATACACAAAATTGGACAACATG
* * * * *
9793332 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGTACA
1 TATATACAAAATTTGACAGCATGTATT-ACCAAAATTGGGCAGCATATATATACCAATTTGGACA
* *
9793397 GCACTTATACACAAAATTTGACAGCATG
65 GCACTTATACACAAAATTGGACAACATG
9793425 TATATACAAAATTTGACAGCATGTATATA-CAAAATTGGGCAGCATATATATACCAATTT
1 TATATACAAAATTTGACAGCATGTAT-TACCAAAATTGGGCAGCATATATATACCAATTT
9793484 TAGACCATTA
Statistics
Matches: 136, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
91 22 0.16
92 74 0.54
93 39 0.29
94 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (92 bp):
TATATACAAAATTTGACAGCATGTATTACCAAAATTGGGCAGCATATATATACCAATTTGGACAG
CACTTATACACAAAATTGGACAACATG
Found at i:9793392 original size:161 final size:163
Alignment explanation
Indices: 9793108--9793468 Score: 600
Period size: 161 Copynumber: 2.2 Consensus size: 163
9793098 TATACATCAG
* * *
9793108 AAATTGAGCAGCATGTATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATA
1 AAATTGGGCAGCATGTATATACCAATTTGGACAGCACTTATACACAAAATTGGACAACATGTATA
*
9793173 TACAAAATTGGACAGGATTTTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGTACAGC
66 TACAAAATTGGACAGCA-TTTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGTACAGC
*
9793238 ACTTATACACAAAATTTGACAGCATGTATATCCA
130 ACTTATACACAAAATTTGACAGCATGTATATACA
*
9793272 AAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACAC-AAATTGGACAACATGTATA
1 AAATTGGGCAGCATGTATATACCAATTTGGACAGCACTTATACACAAAATTGGACAACATGTATA
9793336 TACAAAATTGGACAGCA-TTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGTACAGCA
66 TACAAAATTGGACAGCATTTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGTACAGCA
9793400 CTTATACACAAAATTTGACAGCATGTATATACA
131 CTTATACACAAAATTTGACAGCATGTATATACA
* * * * *
9793433 AAATTTGACAGCATGTATATACAAAATTGGGCAGCA
1 AAATTGGGCAGCATGTATATACCAATTTGGACAGCA
9793469 TATATATACC
Statistics
Matches: 185, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
161 109 0.59
163 33 0.18
164 43 0.23
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (163 bp):
AAATTGGGCAGCATGTATATACCAATTTGGACAGCACTTATACACAAAATTGGACAACATGTATA
TACAAAATTGGACAGCATTTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGTACAGCA
CTTATACACAAAATTTGACAGCATGTATATACA
Found at i:9793475 original size:46 final size:46
Alignment explanation
Indices: 9793111--9793477 Score: 295
Period size: 46 Copynumber: 7.9 Consensus size: 46
9793101 ACATCAGAAA
* * *
9793111 TTGAGCAGCATGTATATACCAATTTGGACAGCACT-TATACACAAAAT
1 TTGA-CAGCATGTATATACAAAATTGGACAGCA-TATATATACAAAAT
* * *
9793158 TTGACAGCATGTATATACAAAATTGGACAGGATTTTTATTCACCAAAAT
1 TTGACAGCATGTATATACAAAATTGGACAGCATATATA-T-A-CAAAAT
* * * * * * *
9793207 TGGGCAGCATATATGTAGC-AATTTGTACAGCACT-TATACACAAAAT
1 TTGACAGCATGTATATA-CAAAATTGGACAGCA-TATATATACAAAAT
* * *
9793253 TTGACAGCATGTATATCCAAAATTGGGCAGCATATATATAC-CAAT
1 TTGACAGCATGTATATACAAAATTGGACAGCATATATATACAAAAT
* * *
9793298 TTGGACAGCA-CT-TATACACAAATTGGACAACATGTATATACAAAAT
1 TT-GACAGCATGTATATACA-AAATTGGACAGCATATATATACAAAAT
* * * *
9793344 TGGACAGCATTTAT-TCACCAAAATTGGGCAGCATATATGTAGC--AAT
1 TTGACAGCATGTATAT-A-CAAAATTGGACAGCATATATATA-CAAAAT
* * *
9793390 TTGTACAGCACT-TATACACAAAATTTGACAGCATGTATATACAAAAT
1 TTG-ACAGCA-TGTATATACAAAATTGGACAGCATATATATACAAAAT
*
9793437 TTGACAGCATGTATATACAAAATTGGGCAGCATATATATAC
1 TTGACAGCATGTATATACAAAATTGGACAGCATATATATAC
9793478 CAATTTTAGA
Statistics
Matches: 252, Mismatches: 46, Indels: 45
0.73 0.13 0.13
Matches are distributed among these distances:
44 5 0.02
45 37 0.15
46 131 0.52
47 40 0.16
48 5 0.02
49 32 0.13
50 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (46 bp):
TTGACAGCATGTATATACAAAATTGGACAGCATATATATACAAAAT
Found at i:9794213 original size:28 final size:28
Alignment explanation
Indices: 9794173--9794299 Score: 150
Period size: 28 Copynumber: 4.5 Consensus size: 28
9794163 TTTCATAAGT
* * *
9794173 TCGCACACTTAGTGTTCAATAATCAAAC
1 TCGCACACTTAGTGTTCTACAATTAAAC
* *
9794201 TCGCACACTTAGTGCTT-TGCCATTAAAC
1 TCGCACACTTAGTG-TTCTACAATTAAAC
9794229 TCGCACACTTAGTGATT-TACAATTAAAC
1 TCGCACACTTAGTG-TTCTACAATTAAAC
* * *
9794257 TCGTACACTTAGTGTTTTACAATTAAAT
1 TCGCACACTTAGTGTTCTACAATTAAAC
9794285 TCGCACACTTAGTGT
1 TCGCACACTTAGTGT
9794300 CGAAAGTCAA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
27 2 0.02
28 82 0.95
29 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.34
Consensus pattern (28 bp):
TCGCACACTTAGTGTTCTACAATTAAAC
Found at i:9807149 original size:14 final size:14
Alignment explanation
Indices: 9807130--9807161 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9807120 GATGTTTGCC
9807130 TATACCATTTGCTT
1 TATACCATTTGCTT
*
9807144 TATACCGTTTGCTT
1 TATACCATTTGCTT
9807158 TATA
1 TATA
9807162 TGCAAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (14 bp):
TATACCATTTGCTT
Found at i:9810508 original size:24 final size:24
Alignment explanation
Indices: 9810481--9810532 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9810471 TTAGTAAGTC
*
9810481 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
9810505 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
9810529 AAAT
1 AAAT
9810533 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:9812297 original size:24 final size:24
Alignment explanation
Indices: 9812269--9812320 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9812259 TTAGTAAATC
*
9812269 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
9812293 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
9812317 AAAT
1 AAAT
9812321 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:9816718 original size:16 final size:16
Alignment explanation
Indices: 9816697--9816754 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
9816687 ATGTCATACA
9816697 AATAAAATCATTTATT
1 AATAAAATCATTTATT
*** *
9816713 AATAAAATCAAAAAATAA
1 AATAAAATC-ATTTAT-T
9816731 AATAAAATCATTTATT
1 AATAAAATCATTTATT
9816747 AATAAAAT
1 AATAAAAT
9816755 TCTTGAAGGG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 17 0.53
17 6 0.19
18 9 0.28
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATCATTTATT
Found at i:9818007 original size:29 final size:29
Alignment explanation
Indices: 9817974--9818030 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
9817964 TCCACCTTGA
* *
9817974 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAATTCTTCAC
*
9818003 CACGAACTCTCAATGAACAAATTCTTCA
1 CACGAACTCTCAACGAACAAATTCTTCA
9818031 TCTCTTCCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.25
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAATTCTTCAC
Found at i:9818543 original size:53 final size:54
Alignment explanation
Indices: 9818458--9818571 Score: 194
Period size: 53 Copynumber: 2.1 Consensus size: 54
9818448 AATAGTAAAG
* *
9818458 ACATACCATGTGAAAGATCTTCTTTTATTAAGGTCTTCAGCAAAATCAGAATCA
1 ACATACCATGTGAAAGATCTTATTTTATTAAGGTCTCCAGCAAAATCAGAATCA
*
9818512 ACAT-CCATGTGAAAGATCTTATTTTATTAAGGTCTCCAGGAAAATCAGAATCA
1 ACATACCATGTGAAAGATCTTATTTTATTAAGGTCTCCAGCAAAATCAGAATCA
9818565 ACATACC
1 ACATACC
9818572 TAATGACACC
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 50 0.89
54 6 0.11
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (54 bp):
ACATACCATGTGAAAGATCTTATTTTATTAAGGTCTCCAGCAAAATCAGAATCA
Done.