Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 120 of 125
Found at i:37731341 original size:6 final size:6
Alignment explanation
Indices: 37731325--37731375 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
37731315 AGGAGCTGAA
* * *
37731325 AGGGGG TGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGGAGG AGGAGG
1 AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG
37731373 AGG
1 AGG
37731376 TGGTGCAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.20, C:0.00, G:0.78, T:0.02
Consensus pattern (6 bp):
AGGGGG
Found at i:37735608 original size:18 final size:18
Alignment explanation
Indices: 37735582--37735617 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37735572 TAACTGATCC
37735582 AATCAATCTAATTCGATT
1 AATCAATCTAATTCGATT
* *
37735600 AATCGATCTAATTTGATT
1 AATCAATCTAATTCGATT
37735618 TAAGGTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (18 bp):
AATCAATCTAATTCGATT
Found at i:37736125 original size:6 final size:6
Alignment explanation
Indices: 37736116--37736148 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
37736106 TGGCTTTTGC
37736116 TTCTGT TTCTGT TTCTGT TTCTGT TTCTGT TTC
1 TTCTGT TTCTGT TTCTGT TTCTGT TTCTGT TTC
37736149 GGGAATCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.15, T:0.67
Consensus pattern (6 bp):
TTCTGT
Found at i:37742986 original size:32 final size:32
Alignment explanation
Indices: 37742949--37743044 Score: 192
Period size: 32 Copynumber: 3.0 Consensus size: 32
37742939 AATGTCATAT
37742949 TTCTTTTGTTCTCTTTCATTCATTATCATTAA
1 TTCTTTTGTTCTCTTTCATTCATTATCATTAA
37742981 TTCTTTTGTTCTCTTTCATTCATTATCATTAA
1 TTCTTTTGTTCTCTTTCATTCATTATCATTAA
37743013 TTCTTTTGTTCTCTTTCATTCATTATCATTAA
1 TTCTTTTGTTCTCTTTCATTCATTATCATTAA
37743045 GGTAACCTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.19, C:0.19, G:0.03, T:0.59
Consensus pattern (32 bp):
TTCTTTTGTTCTCTTTCATTCATTATCATTAA
Found at i:37747650 original size:29 final size:29
Alignment explanation
Indices: 37747608--37747700 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 29
37747598 AATAAAATTA
37747608 AAATTATAAATTAA-CTTCTCTAAAAATAAT
1 AAATTATAAATTAATCTT-T-TAAAAATAAT
* *
37747638 AAATT-TAATTTAATCTTTTAAAAATTAT
1 AAATTATAAATTAATCTTTTAAAAATAAT
*
37747666 AAAAATATAAA-T--T-TTTTAAAAATAAT
1 -AAATTATAAATTAATCTTTTAAAAATAAT
37747692 AAAATTATA
1 -AAATTATA
37747701 TTTTTACTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 20 0.37
27 1 0.02
28 9 0.17
29 13 0.24
30 11 0.20
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (29 bp):
AAATTATAAATTAATCTTTTAAAAATAAT
Found at i:37753823 original size:195 final size:196
Alignment explanation
Indices: 37753485--37753845 Score: 557
Period size: 195 Copynumber: 1.8 Consensus size: 196
37753475 TCCAGTAACT
* * *
37753485 ATCTTGAAATCAAGCTAAGTTGCACCACAAATAGGGAGTAAGCTCTCCCCACACCTATTTTCTCT
1 ATCTAGAAATCAAGCTAAGCTGCACCACAAATAGGGAGTAAGCTCTCCCAACACCTATTTTCTCT
*
37753550 ATTCAGAAGACTCAAAAACGAGATCTTGCTTAAGGAGCATCGAGCTCCTTAGCACTTGGCCCCAT
66 ATTCAGAAGACTCAAAAACGAGATCTTGCTTAAGGAGCATCGAGCTCCTTACCACTTGGCCCCAT
*
37753615 AAGCATCAAGTCAATCTCATTATATTATTAATGAATGGTATCCAGTAATCACATTGTATTTGAAC
131 AAGCATCAAGTCAATCTCATTATATTATCAATGAATGGTATCCAGTAATCACATTGTATTTGAAC
37753680 C
196 C
* *
37753681 ATCTAGAAATCAAGTTAAGCTGGACC-CAAAATAGGGAGTAAGCTCTCCCAACACCTA-TTTCTC
1 ATCTAGAAATCAAGCTAAGCTGCACCAC-AAATAGGGAGTAAGCTCTCCCAACACCTATTTTCTC
** * * *
37753744 TATTCAGAAGACT-TGAAACAGAGATCTTGCTTAAGGAGGATCGAGCTTCTTACCACTTGGCCCT
65 TATTCAGAAGACTCAAAAAC-GAGATCTTGCTTAAGGAGCATCGAGCTCCTTACCACTTGGCCCC
* *
37753808 ATAGGCATTAAGTCAATCTCATTATATTATCAATGAAT
129 ATAAGCATCAAGTCAATCTCATTATATTATCAATGAAT
37753846 AGGTTCAGTA
Statistics
Matches: 149, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
194 4 0.03
195 95 0.64
196 50 0.34
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (196 bp):
ATCTAGAAATCAAGCTAAGCTGCACCACAAATAGGGAGTAAGCTCTCCCAACACCTATTTTCTCT
ATTCAGAAGACTCAAAAACGAGATCTTGCTTAAGGAGCATCGAGCTCCTTACCACTTGGCCCCAT
AAGCATCAAGTCAATCTCATTATATTATCAATGAATGGTATCCAGTAATCACATTGTATTTGAAC
C
Found at i:37763948 original size:104 final size:104
Alignment explanation
Indices: 37763761--37763948 Score: 270
Period size: 104 Copynumber: 1.8 Consensus size: 104
37763751 CAAAGCCCAA
*
37763761 ATATTGTCAATATCAGAAGAAATTTGTGTTCAAAAGAGACTACATGCTTAAAGCATTGATCGATC
1 ATATTGCCAATATCAGAAGAAATTTGTGTTCAAAAGAGACTACATGCTTAAAGCATTGATCGATC
* **
37763826 TTCATAGAACCCTTAATTTAAAAATATATATATATATAT
66 TTCACAGAACCCACAATTTAAAAATATATATATATATAT
* * * * * *
37763865 ATATTGCCAATATTAGAAGAAATTTGTGTTCAAAAGAGATTACATGCTTAAAGCATTGGTTGGTT
1 ATATTGCCAATATCAGAAGAAATTTGTGTTCAAAAGAGACTACATGCTTAAAGCATTGATCGATC
37763930 TTCACA-AATCCCACAATTT
66 TTCACAGAA-CCCACAATTT
37763949 CACAAAAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
103 2 0.03
104 71 0.97
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (104 bp):
ATATTGCCAATATCAGAAGAAATTTGTGTTCAAAAGAGACTACATGCTTAAAGCATTGATCGATC
TTCACAGAACCCACAATTTAAAAATATATATATATATAT
Found at i:37765500 original size:6 final size:6
Alignment explanation
Indices: 37765489--37765523 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
37765479 AGGAGCGATG
* *
37765489 AACGGC AACGGC AACGGC AACGGA AACGGA AACGG
1 AACGGC AACGGC AACGGC AACGGC AACGGC AACGG
37765524 AAGGAGGCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.40, C:0.26, G:0.34, T:0.00
Consensus pattern (6 bp):
AACGGC
Found at i:37765950 original size:2 final size:2
Alignment explanation
Indices: 37765943--37765997 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
37765933 CTAGAACTCC
*
37765943 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
37765985 TA TG TA TG TA TA T
1 TA TA TA TA TA TA T
37765998 GAAATTTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37770083 original size:16 final size:16
Alignment explanation
Indices: 37770043--37770085 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
37770033 AAAAAATAAT
*
37770043 ATATAATATATAAAATT
1 ATATAATAT-TAAAATA
37770060 AT-TAAATATTAAAATA
1 ATAT-AATATTAAAATA
37770076 ATATAATATT
1 ATATAATATT
37770086 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATATTAAAATA
Found at i:37772580 original size:23 final size:23
Alignment explanation
Indices: 37772550--37772597 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
37772540 GATAATTTAG
37772550 ATACATAATTTAAATTTCATATT
1 ATACATAATTTAAATTTCATATT
37772573 ATACATAATTTAAATTTCATATT
1 ATACATAATTTAAATTTCATATT
37772596 AT
1 AT
37772598 CTAATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (23 bp):
ATACATAATTTAAATTTCATATT
Found at i:37772826 original size:18 final size:18
Alignment explanation
Indices: 37772803--37772839 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
37772793 ACACCGTGTG
37772803 ATTTTATATATT-TTAATA
1 ATTTTAT-TATTATTAATA
37772821 ATTTTATTATTATTAATA
1 ATTTTATTATTATTAATA
37772839 A
1 A
37772840 AACATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTATTATTATTAATA
Found at i:37779708 original size:21 final size:23
Alignment explanation
Indices: 37779684--37779730 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
37779674 TAATAGTTTT
*
37779684 AAATTTTTATA-ATTTTTAA-TA
1 AAATTTCTATACATTTTTAATTA
37779705 AAATTTCTATACATTTTTAATTA
1 AAATTTCTATACATTTTTAATTA
37779728 AAA
1 AAA
37779731 ATTGTGGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.43
22 8 0.35
23 5 0.22
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
AAATTTCTATACATTTTTAATTA
Found at i:37779776 original size:21 final size:22
Alignment explanation
Indices: 37779742--37779782 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
37779732 TTGTGGTATG
* *
37779742 TTTTTAACATATTTTAATAACT
1 TTTTTAACACATTTAAATAACT
37779764 TTTTTAA-ACATTTAAATAA
1 TTTTTAACACATTTAAATAA
37779783 AATTTGTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTTAACACATTTAAATAACT
Found at i:37802805 original size:21 final size:20
Alignment explanation
Indices: 37802771--37802817 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
37802761 CTCTTTAATC
37802771 ATTC-TTATTTATATTATTT
1 ATTCTTTATTTATATTATTT
*
37802790 ATTCTTTATATTATATTTTTT
1 ATTCTTTAT-TTATATTATTT
*
37802811 AGTCTTT
1 ATTCTTT
37802818 GGAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 16 0.67
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTCTTTATTTATATTATTT
Found at i:37805711 original size:27 final size:28
Alignment explanation
Indices: 37805681--37805734 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
37805671 TTGGGTCAAA
** *
37805681 TTTAATTTTAAAAATAT-TTTATTTAAG
1 TTTAATTAGAAAAATATATTAATTTAAG
37805708 TTTAATTAGAAAAATATATTAATTTAA
1 TTTAATTAGAAAAATATATTAATTTAA
37805735 ACTTATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
TTTAATTAGAAAAATATATTAATTTAAG
Found at i:37806515 original size:2 final size:2
Alignment explanation
Indices: 37806508--37806546 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
37806498 CTCAACTTTT
37806508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37806547 GAAAATAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37807833 original size:138 final size:138
Alignment explanation
Indices: 37807585--37807865 Score: 553
Period size: 138 Copynumber: 2.0 Consensus size: 138
37807575 GTTTTGGTCA
37807585 CTAAACTTCAAAAGTTACAAATGGTCATTGAACTATTTGAAAGTTTTCATTTAAGTTATTGGGTT
1 CTAAACTTCAAAAGTTACAAATGGTCATTGAACTATTTGAAAGTTTTCATTTAAGTTATTGGGTT
37807650 GTTAAAATCGTTGTATGTCCTTCTCTATTCTCACCTCCAGCACCCATCAAAGGGGTAAACTTTCC
66 GTTAAAATCGTTGTATGTCCTTCTCTATTCTCACCTCCAGCACCCATCAAAGGGGTAAACTTTCC
37807715 CTCTTCTT
131 CTCTTCTT
*
37807723 CTAAACTTCAAAGGTTACAAATGGTCATTGAACTATTTGAAAGTTTTCATTTAAGTTATTGGGTT
1 CTAAACTTCAAAAGTTACAAATGGTCATTGAACTATTTGAAAGTTTTCATTTAAGTTATTGGGTT
37807788 GTTAAAATCGTTGTATGTCCTTCTCTATTCTCACCTCCAGCACCCATCAAAGGGGTAAACTTTCC
66 GTTAAAATCGTTGTATGTCCTTCTCTATTCTCACCTCCAGCACCCATCAAAGGGGTAAACTTTCC
37807853 CTCTTCTT
131 CTCTTCTT
37807861 CTAAA
1 CTAAA
37807866 GTTTAGTTTT
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 142 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (138 bp):
CTAAACTTCAAAAGTTACAAATGGTCATTGAACTATTTGAAAGTTTTCATTTAAGTTATTGGGTT
GTTAAAATCGTTGTATGTCCTTCTCTATTCTCACCTCCAGCACCCATCAAAGGGGTAAACTTTCC
CTCTTCTT
Found at i:37811948 original size:14 final size:14
Alignment explanation
Indices: 37811929--37811974 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
37811919 TAATTATGGA
37811929 TTTAATTTTTATAT
1 TTTAATTTTTATAT
37811943 TTTAATTTGATTA-AT
1 TTTAATTT--TTATAT
*
37811958 TTTAGTTTTTATAT
1 TTTAATTTTTATAT
37811972 TTT
1 TTT
37811975 TAAAATTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.11
14 13 0.46
15 9 0.32
16 3 0.11
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (14 bp):
TTTAATTTTTATAT
Found at i:37815012 original size:19 final size:20
Alignment explanation
Indices: 37814973--37815015 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
37814963 TTTTTTTTCA
* *
37814973 AGTTTATTTTATTTATAGTT
1 AGTTAATTTTAGTTATAGTT
37814993 AGTTAATTTTAGTT-TAGTT
1 AGTTAATTTTAGTTATAGTT
37815012 AGTT
1 AGTT
37815016 GTTAAGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (20 bp):
AGTTAATTTTAGTTATAGTT
Found at i:37817526 original size:26 final size:25
Alignment explanation
Indices: 37817488--37817536 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
37817478 TGGGATGAAT
*
37817488 AAAAACTCAAGCATCAAATTGAAAA
1 AAAAACTCAAGCACCAAATTGAAAA
*
37817513 AAAATACTCAAGCACCTAATTGAA
1 AAAA-ACTCAAGCACCAAATTGAA
37817537 CATTGAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.18
Consensus pattern (25 bp):
AAAAACTCAAGCACCAAATTGAAAA
Found at i:37817570 original size:31 final size:31
Alignment explanation
Indices: 37817530--37817590 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
37817520 TCAAGCACCT
* *
37817530 AATTGAACATTGAAACCAAACTCAAATATTA
1 AATTAAACATTAAAACCAAACTCAAATATTA
** *
37817561 AATTAAACATTAAAATTAAACTTAAATATT
1 AATTAAACATTAAAACCAAACTCAAATATT
37817591 GATAATTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (31 bp):
AATTAAACATTAAAACCAAACTCAAATATTA
Found at i:37821127 original size:27 final size:25
Alignment explanation
Indices: 37821097--37821148 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
37821087 TGAAAATTCT
37821097 TATAAAATTAAATATAAAACATATAAA
1 TATAAAATTAAAT-T-AAACATATAAA
*
37821124 TATAAAATTAAATTAAATATATAAA
1 TATAAAATTAAATTAAACATATAAA
37821149 ATTAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 10 0.42
26 1 0.04
27 13 0.54
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TATAAAATTAAATTAAACATATAAA
Found at i:37821493 original size:16 final size:17
Alignment explanation
Indices: 37821472--37821503 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37821462 CGATCAGATC
37821472 ATTAA-TATTTAATTTG
1 ATTAATTATTTAATTTG
37821488 ATTAATTATTTAATTT
1 ATTAATTATTTAATTT
37821504 TAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTAATTATTTAATTTG
Found at i:37821517 original size:23 final size:23
Alignment explanation
Indices: 37821473--37821528 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
37821463 GATCAGATCA
** *
37821473 TTAATATTTAATTTGATTAATTAT
1 TTAATATTTAATTAAATAAATT-T
37821497 TTAAT-TTTAATTAAATAAATTT
1 TTAATATTTAATTAAATAAATTT
*
37821519 TTAAAATTTA
1 TTAATATTTA
37821529 TAAAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 5 0.19
23 17 0.63
24 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TTAATATTTAATTAAATAAATTT
Found at i:37822717 original size:19 final size:18
Alignment explanation
Indices: 37822693--37822731 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
37822683 TTCGTGTTTA
37822693 ATTAATAAAATATTTATAT
1 ATTAATAAAATATTTA-AT
* *
37822712 ATTAATTAAATGTTTAAT
1 ATTAATAAAATATTTAAT
37822730 AT
1 AT
37822732 CATTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTAATAAAATATTTAAT
Found at i:37830955 original size:74 final size:73
Alignment explanation
Indices: 37830873--37831021 Score: 244
Period size: 74 Copynumber: 2.0 Consensus size: 73
37830863 AAATTAATTC
*
37830873 AATTAATAATAAAGGGATTAATTTGATTAGATCCTTATAATAGAGGGACCTCTCAAGTTCATTCA
1 AATTAATAACAAAGGGATTAATTTGATTAGATCCTTATAATAGA-GGACCTCTCAAGTTCATTCA
37830938 CCAAAATAA
65 CCAAAATAA
* * * *
37830947 AATTAATAACACAGGGATTAATTTGATTAGGTCCTTATAATAGAGGACCTCTTAGGTTCATTCAC
1 AATTAATAACAAAGGGATTAATTTGATTAGATCCTTATAATAGAGGACCTCTCAAGTTCATTCAC
37831012 CAAAATAA
66 CAAAATAA
37831020 AA
1 AA
37831022 GTAAAAGAAC
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 29 0.41
74 41 0.59
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (73 bp):
AATTAATAACAAAGGGATTAATTTGATTAGATCCTTATAATAGAGGACCTCTCAAGTTCATTCAC
CAAAATAA
Found at i:37841442 original size:62 final size:62
Alignment explanation
Indices: 37841354--37841476 Score: 201
Period size: 62 Copynumber: 2.0 Consensus size: 62
37841344 CACGCAATGA
* *
37841354 ACCATTAATCACAAATCTTCAAAACTCAGTTCAAATGCAATAGCATCCTAAGTACCATCACT
1 ACCATTAATCACAAATCATCAAAACTCAGTTCAAATGCAATAGCATCCTAAGAACCATCACT
* * *
37841416 ACCATTAATCCCAAATCATCATAACTCAGTTCAAATGCAATAGCATCTTAAGAACCATCAC
1 ACCATTAATCACAAATCATCAAAACTCAGTTCAAATGCAATAGCATCCTAAGAACCATCAC
37841477 GCAATGAACC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.25
Consensus pattern (62 bp):
ACCATTAATCACAAATCATCAAAACTCAGTTCAAATGCAATAGCATCCTAAGAACCATCACT
Found at i:37859395 original size:31 final size:31
Alignment explanation
Indices: 37859335--37859421 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 31
37859325 GTTACTCCAC
* *
37859335 TTCAAAAG-TTTCACTTT-AGTTATTGAACTA
1 TTCAAAAGTTTTCA-TTTAAGTCATTAAACTA
**
37859365 TTTGAAAGTTTTCATTTAAGTCATTAAACTA
1 TTCAAAAGTTTTCATTTAAGTCATTAAACTA
37859396 TTCAAAAGTTTTCATTTAAGTCATTA
1 TTCAAAAGTTTTCATTTAAGTCATTA
37859422 GACTTTTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
30 9 0.18
31 40 0.82
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (31 bp):
TTCAAAAGTTTTCATTTAAGTCATTAAACTA
Found at i:37860575 original size:30 final size:31
Alignment explanation
Indices: 37860520--37860607 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 31
37860510 TGGTTTCACT
* *
37860520 CTTGAAATTTTTAAAAAAATTTAATTAATCC
1 CTTGAAATTTTTAGAAAATTTTAATTAATCC
* * *
37860551 CTTTAAATTTTT-GAAAATTTTAATT-TTTC
1 CTTGAAATTTTTAGAAAATTTTAATTAATCC
*
37860580 CTTGAAGTTTTTAGAAAATTTTAATTAA
1 CTTGAAATTTTTAGAAAATTTTAATTAA
37860608 GCCCCATCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
29 12 0.26
30 24 0.51
31 11 0.23
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (31 bp):
CTTGAAATTTTTAGAAAATTTTAATTAATCC
Found at i:37861432 original size:37 final size:35
Alignment explanation
Indices: 37861380--37861448 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
37861370 TTTTTTAATG
* *
37861380 TGTACAATTGAATCAAAATCAAAGTTTTATGTATACA
1 TGTACAATCGAATC-AAATCAAA-ATTTATGTATACA
*
37861417 TGTACAATCGCATCAAATCAAAATTTATGTAT
1 TGTACAATCGAATCAAATCAAAATTTATGTAT
37861449 CAAATTGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 9 0.31
36 8 0.28
37 12 0.41
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (35 bp):
TGTACAATCGAATCAAATCAAAATTTATGTATACA
Found at i:37864189 original size:17 final size:17
Alignment explanation
Indices: 37864167--37864200 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37864157 TTTATAATTT
*
37864167 TTTATTAATTTTTGTTA
1 TTTATTAATTATTGTTA
*
37864184 TTTATTTATTATTGTTA
1 TTTATTAATTATTGTTA
37864201 AACCGTTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTATTAATTATTGTTA
Found at i:37875348 original size:22 final size:21
Alignment explanation
Indices: 37875323--37875373 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
37875313 TTTAGGATAG
*
37875323 TTTAATGATTTAAATGATTATT
1 TTTAAT-AATTAAATGATTATT
37875345 TTTAAATAATTAAATGATTATT
1 TTT-AATAATTAAATGATTATT
37875367 TTATAAT
1 TT-TAAT
37875374 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (21 bp):
TTTAATAATTAAATGATTATT
Found at i:37875776 original size:25 final size:25
Alignment explanation
Indices: 37875724--37875773 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
37875714 ATTTTTATAA
*
37875724 TAATAAAATTATAATTTTATTATTT
1 TAATAAAATTATAATTTTATAATTT
*
37875749 TAAT-AAATTATATTTTTATAATTT
1 TAATAAAATTATAATTTTATAATTT
37875773 T
1 T
37875774 TAAATGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TAATAAAATTATAATTTTATAATTT
Found at i:37881384 original size:90 final size:91
Alignment explanation
Indices: 37881201--37881419 Score: 277
Period size: 90 Copynumber: 2.4 Consensus size: 91
37881191 TTAAGGGTGT
* *
37881201 AAAAAG-CCTCAAATTTTTTCAAAAAAAGCAATTAAGCCTCTCCCTTTTTTTTTTTGCACTCAAT
1 AAAAAGCCCTCAAAATTTTTC-AAAAAAGCAATTAAGCCTCTCCCTTTTTCTTTTTGCACTCAAT
*
37881265 TGACCACTTGAACTTTCAAAATGCATC
65 TGACCACTTAAACTTTCAAAATGCATC
* * *
37881292 AAAAAAGCCCTCAAACTTCTTCAAGAAAAGCAATTAAGTCC-CT-GC-TTTTCTTTTT-CACTCA
1 -AAAAAGCCCTCAAAATTTTTCAA-AAAAGCAATTAAG-CCTCTCCCTTTTTCTTTTTGCACTCA
***
37881353 ATTGGGTACTTAAACTTTCAAAATGCATC
63 ATTGACCACTTAAACTTTCAAAATGCATC
37881382 AAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAGC
1 AAAAAG-CCCTCAAAATTTTTCAAAAAAGCAATTAAGC
37881420 TCATGCTCTT
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
88 1 0.01
89 19 0.17
90 46 0.41
91 9 0.08
92 9 0.08
93 27 0.24
94 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (91 bp):
AAAAAGCCCTCAAAATTTTTCAAAAAAGCAATTAAGCCTCTCCCTTTTTCTTTTTGCACTCAATT
GACCACTTAAACTTTCAAAATGCATC
Found at i:37881516 original size:18 final size:18
Alignment explanation
Indices: 37881489--37881523 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37881479 AGAAAATTTA
*
37881489 TTAAATTTTAATAAAAAT
1 TTAAAATTTAATAAAAAT
*
37881507 TTAAAATTTATTAAAAA
1 TTAAAATTTAATAAAAA
37881524 ATAGATTTTT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAATTTAATAAAAAT
Found at i:37881753 original size:20 final size:20
Alignment explanation
Indices: 37881728--37881784 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
37881718 TACAATAATT
37881728 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTACGAAA
* **
37881748 TTTAT-ATTTCTTTAC-ATT
1 TTTATAATTTTTTTACGAAA
*
37881766 TTGTATAATTTTCTTACGA
1 TT-TATAATTTTTTTACGA
37881785 CTTTATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 13 0.45
21 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATTTTTTTACGAAA
Found at i:37881811 original size:20 final size:19
Alignment explanation
Indices: 37881786--37881864 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
37881776 TTCTTACGAC
37881786 TTTATAAAATTTTATAACTT
1 TTTATAAAATTTTATAA-TT
37881806 TTTAT---ATTTCTATATATT
1 TTTATAAAATTT-TATA-ATT
* * * *
37881824 TCTATATATTTTTATGATT
1 TTTATAAAATTTTATAATT
*
37881843 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTATAATT
37881862 TTT
1 TTT
37881865 TATATTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
17 4 0.09
18 10 0.22
19 21 0.46
20 8 0.17
21 3 0.07
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:37881821 original size:10 final size:10
Alignment explanation
Indices: 37881808--37881834 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
37881798 TATAACTTTT
37881808 TATATTTCTA
1 TATATTTCTA
37881818 TATATTTCTA
1 TATATTTCTA
37881828 TATATTT
1 TATATTT
37881835 TTATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTCTA
Found at i:37881848 original size:19 final size:19
Alignment explanation
Indices: 37881795--37881905 Score: 84
Period size: 19 Copynumber: 5.8 Consensus size: 19
37881785 CTTTATAAAA
*
37881795 TTTTATAACTTTT-TATAT
1 TTTTATAATTTTTATATAT
* *
37881813 TTCTATATATTTCTATATAT
1 TTTTATA-ATTTTTATATAT
* * *
37881833 TTTTATGATTTTTATAAAA
1 TTTTATAATTTTTATATAT
*
37881852 TTTTACAATTTTT-TATAT
1 TTTTATAATTTTTATATAT
*
37881870 TTTT-TCACGATTTTTATATTT
1 TTTTAT-A--ATTTTTATATAT
*
37881891 TTTTCTAATTTTTAT
1 TTTTATAATTTTTAT
37881906 TAAAATTTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
18 14 0.19
19 32 0.44
20 16 0.22
21 9 0.12
22 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTATATAT
Found at i:37881959 original size:29 final size:27
Alignment explanation
Indices: 37881900--37881962 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
37881890 TTTTTCTAAT
**
37881900 TTTTATTAAAATTTTAATATTTGAATT
1 TTTTATTAAAATTTTAATATTTGAAGC
37881927 TTTTATTAAAATTTAATAATATTT-ATAGC
1 TTTTATTAAAATTT--TAATATTTGA-AGC
37881956 TTTTATT
1 TTTTATT
37881963 GATTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 14 0.45
28 1 0.03
29 16 0.52
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTTATTAAAATTTTAATATTTGAAGC
Found at i:37888585 original size:15 final size:15
Alignment explanation
Indices: 37888565--37888605 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
37888555 GATTTATCAT
37888565 TAAAAATAAATTTTG
1 TAAAAATAAATTTTG
* *
37888580 TAAAAATGATTTTTG
1 TAAAAATAAATTTTG
37888595 -AAAAATAAATT
1 TAAAAATAAATT
37888606 GTTTTTATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (15 bp):
TAAAAATAAATTTTG
Found at i:37888942 original size:23 final size:24
Alignment explanation
Indices: 37888907--37888957 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
37888897 TGATTTAAAT
* * *
37888907 AAATATTCGTA-TTTATATTATTA
1 AAATATTCATATTTTACATTATAA
*
37888930 AAATTTTCATATTTTACATTATAA
1 AAATATTCATATTTTACATTATAA
37888954 AAAT
1 AAAT
37888958 GTTATTTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (24 bp):
AAATATTCATATTTTACATTATAA
Found at i:37909514 original size:176 final size:176
Alignment explanation
Indices: 37909157--37909657 Score: 586
Period size: 176 Copynumber: 2.8 Consensus size: 176
37909147 ACAGTAACCC
* * *
37909157 TATGTTCATAGAATTCAGTGTATTGAGAGTCTACTTAGTCAACGGTTGTATCATCATATCATCCA
1 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTTATTCAATGGTTG--T-ATC--ATCAT--A
* *
37909222 TCCATCCATCATGTTTAGAAGGTTTTGTCATTGATATGGTGTGTTTTACCCTTGTTCTAAACTCC
59 T-CATCCATCATGTTTAGAAGGTTTTG--ATTGATATGGTGCGTTTTA-CTTTGTTCTAAACTCC
* *
37909287 AGAGTGATAACATATTGTCAAACAAGTTGAGTGCTCTTGGCTTATAAGGTCTGTGCA
120 AGAGTGATAACATATTGTCAAACAAGTTGAGTGCTATTGGCTTAGAAGGTCTGTGCA
*
37909344 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTCTATTCAATGGTCGTATCATCATATCATCC
1 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACT-TATTCAATGGTTGTATCATCATATCATCC
* * * * *
37909409 ATCATGTTTAGAAGGTTTTG-TTGATGTAGTGCGTATTACTTTGTTCTAAACTGCAGAATGATAA
65 ATCATGTTTAGAAGGTTTTGATTGATATGGTGCGTTTTACTTTGTTCTAAACTCCAGAGTGATAA
* * *
37909473 CATATTGTCAAACACGTTGAGTGTTATTGGCTTAGAAGGTCTGTGTA
130 CATATTGTCAAACAAGTTGAGTGCTATTGGCTTAGAAGGTCTGTGCA
* * * * *
37909520 TATGTTCATAGAATTTGGTGTATTG-G-G---A-GTATTCAATGGTTGCATTA-CTGTATCATCC
1 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTTATTCAATGGTTGTATCATC-ATATCATCC
* * *
37909578 ATCATGTTTAGAAGGTTTTGTCATTGATATGGTGGGTTTTACTTTGTTCTAAGCCCCAGAGTGAT
65 ATCATGTTTAGAAGGTTTTG--ATTGATATGGTGCGTTTTACTTTGTTCTAAACTCCAGAGTGAT
*
37909643 AGCATATTGTCAAAC
128 AACATATTGTCAAAC
37909658 GTGTTGAACG
Statistics
Matches: 278, Mismatches: 31, Indels: 25
0.83 0.09 0.07
Matches are distributed among these distances:
168 1 0.00
169 43 0.15
171 1 0.00
172 48 0.17
174 1 0.00
175 1 0.00
176 89 0.32
177 14 0.05
180 25 0.09
181 2 0.01
183 5 0.02
185 3 0.01
186 1 0.00
187 34 0.12
188 10 0.04
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (176 bp):
TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTTATTCAATGGTTGTATCATCATATCATCCA
TCATGTTTAGAAGGTTTTGATTGATATGGTGCGTTTTACTTTGTTCTAAACTCCAGAGTGATAAC
ATATTGTCAAACAAGTTGAGTGCTATTGGCTTAGAAGGTCTGTGCA
Found at i:37912062 original size:120 final size:123
Alignment explanation
Indices: 37911844--37912719 Score: 843
Period size: 132 Copynumber: 6.9 Consensus size: 123
37911834 GCTGGTGGCC
* * * * * *
37911844 AGTGGCAGTGGCAGCTCCTCGGTTGGTAGAGTCTCC-GTCTTCACCCCATGCTGAGCAGCTTTTT
1 AGTGGCATTGGCAGCTCCTCTGTTGGTAGAG-CCCCAGTCTTCATCCCATGCTGGGCTGCTTTTT
* **
37911908 GCTGGAGCCGCAGTTCCACTTGCACTGCTCAAGGCTTGAGACTGAA-CCCCACC-TGG-
65 GCTGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCCACCGTGGT
* * * * *
37911964 AGTGGCATTGGCAGCTCCTCTGTTGATAGAGCACCTGTCTTCATCCCATGATGAGCTGCTTTTTG
1 AGTGGCATTGGCAGCTCCTCTGTTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTG
* * * *
37912029 CTGGTGCCACAGTTCCACTTGCGTTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGT
66 CTGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCC--CACC-GTGGT
* * *
37912090 AGTGGCATTGGCATTAGCAGCTCTGCTGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGC
1 AGTGGCATTGGC---AGC-TC-CT-CTGTTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGC
* * *
37912155 TTTTTGCTGGAGCCACAGTTCTACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTG
60 TTTTTGCTGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCC--CACC-GTG
37912220 GT
122 GT
* * * *
37912222 AGTGGCATTGGCATTAGCAGCTCTGCTGGTGTTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGC
1 AGTGGCATTGGC---AGC-TC-CT-CTGTTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGC
* * * *
37912287 TTTTTGCTGGAGCCACAGCTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGTCCATCTCCAGTG
60 TTTTTGCTGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAG-CC-CCACC-GTG
37912352 GT
122 GT
* ** * * * *
37912354 AGTGGCATTGGAAGCT-CTGCTGGGGGTAGAGCCCCACTCTTCATCCCATTCTGCGTTGCTTTTT
1 AGTGGCATTGGCAGCTCCT-CTGTTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTT
* * * * * *
37912418 GCAGGAGCTACAGTTCCACTTGCGTCGCTCAAGGCTTGAGACTGAA-TCCCATC-T-GC
65 GCTGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCCACCGTGGT
* * * *
37912474 AGTGGTAGTGGCAGCTCCTCTGTTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTG
1 AGTGGCATTGGCAGCTCCTCTGTTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTG
** * * *
37912539 CCAGATCCACAGTTCCACTCGCGTTGCTCAAGGCTTGAGACTGAA-TCCCATCTGCGGTGGTCGT
66 CTGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCCA-C--C-GT-G--GT
* * * *
37912603 GGCAGTGGCATTGGCAGCTCCTCTCTGGGCAGAGCCCCAGGCTTCATCCCATGCTGGGCTGCTTT
1 ---AGTGGCATTGGCAGCTCCTCTGTTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTT
* * *
37912668 TTGCCGGAGCCACAGTTCCACTTGCATTGCTCAACGCTTGAGACTGAAGCCC
63 TTGCTGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCC
37912720 ATTGGAAGTG
Statistics
Matches: 650, Mismatches: 77, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
119 3 0.00
120 191 0.29
121 6 0.01
123 6 0.01
124 1 0.00
125 4 0.01
126 94 0.14
129 7 0.01
130 1 0.00
131 2 0.00
132 331 0.51
133 4 0.01
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.28
Consensus pattern (123 bp):
AGTGGCATTGGCAGCTCCTCTGTTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTG
CTGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCCACCGTGGT
Found at i:37912203 original size:132 final size:132
Alignment explanation
Indices: 37911966--37912721 Score: 924
Period size: 132 Copynumber: 5.9 Consensus size: 132
37911956 CCACCTGGAG
* * * * * * *
37911966 TGGCATTGGCAGCTCCT-CTGTTGATAGAGCACCTGTCTTCATCCCATGATGAGCTGCTTTTTGC
1 TGGCATTAGCAGCT-CTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTGC
* *
37912030 TGGTGCCACAGTTCCACTTGCGTTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGG
65 TGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGG
37912095 CAT
130 CAT
*
37912098 TGGCATTAGCAGCTCTGCTGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTTTGCT
1 TGGCATTAGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTGCT
*
37912163 GGAGCCACAGTTCTACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
66 GGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
37912228 AT
131 AT
* *
37912230 TGGCATTAGCAGCTCTGCTGGTGTTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTTTGCT
1 TGGCATTAGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTGCT
* *
37912295 GGAGCCACAGCTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGTCCATCTCCAGTGGTAGTGGC
66 GGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
37912360 AT
131 AT
* * * * * *
37912362 TGG----A--AGCTCTGCTGGGGGTAGAGCCCCACTCTTCATCCCATTCTGCGTTGCTTTTTGCA
1 TGGCATTAGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTGCT
* * * * *
37912421 GGAGCTACAGTTCCACTTGCGTCGCTCAAGGCTTGAGACTGAATCCCATCTGCAGTGGTAGTGGC
66 GGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
37912486 A-
131 AT
* * *
37912487 --GC--T--C--CTCTG-T--TGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCC
1 TGGCATTAGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTGCT
* * * * * * * *
37912541 AGATCCACAGTTCCACTCGCGTTGCTCAAGGCTTGAGACTGAATCCCATCTGCGGTGGTCGTGGC
66 GGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
*
37912606 AG
131 AT
* * * *
37912608 TGGCATTGGCAGCTCCT-CT-CTGGGCAGAGCCCCAGGCTTCATCCCATGCTGGGCTGCTTTTTG
1 TGGCATTAGCAGCT-CTGCTGGT-GGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTG
* * * *
37912671 CCGGAGCCACAGTTCCACTTGCATTGCTCAACGCTTGAGACTGAAGCCCAT
64 CTGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCAT
37912722 TGGAAGTGAC
Statistics
Matches: 556, Mismatches: 51, Indels: 34
0.87 0.08 0.05
Matches are distributed among these distances:
120 97 0.17
122 1 0.00
123 8 0.01
125 1 0.00
126 106 0.19
127 1 0.00
128 1 0.00
129 2 0.00
130 3 0.01
131 3 0.01
132 333 0.60
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.28
Consensus pattern (132 bp):
TGGCATTAGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTTGCT
GGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
AT
Found at i:37912591 original size:378 final size:380
Alignment explanation
Indices: 37911838--37912718 Score: 1030
Period size: 378 Copynumber: 2.3 Consensus size: 380
37911828 TTAAAGGCTG
* * * * * * * * * *
37911838 GTGGCCAGTGGCAGTGGCAGCTCCTCGGTTGGTAGAGTCTCC-GTCTTCACCCCATGCTGAGCAG
1 GTGG-CAGTGGCATTAGCAGCTCCTCGCTGGGCAGAG-CCCCAGGCTTCATCCCATGCTGGGCTG
* * *
37911902 CTTTTTGCTGGAGCCGCAGTTCCACTTGCACTGCTCAAGGCTTGAGACTGAA-CC-CCACCTGGA
64 CTTTTTGCTGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCATCACCTGGA
* ** **
37911965 GTGGCATTGGCAGCTCCTCTGTTGATAGAGCACCTGTCTTCATCCCATGATGAGCTGCTTTTTGC
129 GTGGCATTGGAAGCTCCTCTGGGGATAGAGCACCACTCTTCATCCCATGATGAGCTGCTTTTTGC
* * * *
37912030 TGGTGCCACAGTTCCACTTGCGTTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGG
194 AGGAGCCACAGTTCCACTTGCGTCGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGG
* * *
37912095 CATTGGCATTAGCAGCTCTGCTGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTTT
259 CA-T-GCA-TA-CA-CTCTGCT-GTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTT
** * *
37912160 GCTGGAGCCACAGTTCTACTTGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTA
318 GCCAGAGCCACAGTTCCACTCGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTA
* * **
37912223 GTGGCATTGGCATTAGCAGCT-CT-GCTGGTGTTAGAGCCCCAGTTTTCATCCCATGCTGGGCTG
1 GTGGCAGTGGCATTAGCAGCTCCTCGCTGG-G-CAGAGCCCCAGGCTTCATCCCATGCTGGGCTG
* * * *
37912286 CTTTTTGCTGGAGCCACAGCTCCACTTGCGTTGCTCAAGGCTTGAGACCGAAGTCCATCTCCAGT
64 CTTTTTGCTGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAG-CCATCACC--T
* * ** * *
37912351 GGTAGTGGCATTGGAAGCT-CTGCTGGGGGTAGAGCCCCACTCTTCATCCCATTCTGCGTTGCTT
126 GG-AGTGGCATTGGAAGCTCCT-CTGGGGATAGAGCACCACTCTTCATCCCATGATGAGCTGCTT
* * * *
37912415 TTTGCAGGAGCTACAGTTCCACTTGCGTCGCTCAAGGCTTGAGACTGAATCCCATCTGCAGTGGT
189 TTTGCAGGAGCCACAGTTCCACTTGCGTCGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGT
37912480 AGTGGCA-GC-T-C-CTCTG-T-TGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTG
254 AGTGGCATGCATACACTCTGCTGTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTG
* * * * * *
37912539 CCAGATCCACAGTTCCACTCGCGTTGCTCAAGGCTTGAGACTGAATCCCATCTGCGGTGGTC
319 CCAGAGCCACAGTTCCACTCGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTA
* *
37912601 GTGGCAGTGGCATTGGCAGCTCCTCTCTGGGCAGAGCCCCAGGCTTCATCCCATGCTGGGCTGCT
1 GTGGCAGTGGCATTAGCAGCTCCTCGCTGGGCAGAGCCCCAGGCTTCATCCCATGCTGGGCTGCT
* *
37912666 TTTTGCCGGAGCCACAGTTCCACTTGCATTGCTCAACGCTTGAGACTGAAGCC
66 TTTTGCTGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCC
37912719 CATTGGAAGT
Statistics
Matches: 424, Mismatches: 60, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
377 2 0.00
378 187 0.44
379 3 0.01
380 5 0.01
381 5 0.01
382 3 0.01
383 7 0.02
384 84 0.20
385 5 0.01
386 2 0.00
387 5 0.01
389 5 0.01
390 111 0.26
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (380 bp):
GTGGCAGTGGCATTAGCAGCTCCTCGCTGGGCAGAGCCCCAGGCTTCATCCCATGCTGGGCTGCT
TTTTGCTGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCATCACCTGGAGT
GGCATTGGAAGCTCCTCTGGGGATAGAGCACCACTCTTCATCCCATGATGAGCTGCTTTTTGCAG
GAGCCACAGTTCCACTTGCGTCGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGCA
TGCATACACTCTGCTGTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGC
CACAGTTCCACTCGCGTTGCTCAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTA
Found at i:37912711 original size:252 final size:246
Alignment explanation
Indices: 37912255--37912721 Score: 623
Period size: 252 Copynumber: 1.9 Consensus size: 246
37912245 TGCTGGTGTT
* * ** *
37912255 AGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTTTGCTGGAGCCACAGCTCCACTTGCGTTGC
1 AGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCACAGCTCCACTCGCGTTGC
* *
37912320 TCAAGGCTTGAGACCGAAGTCCATCTCCAGTGGTAGTGGCATTGGAAGCTCTGCTGGGGGTAGAG
66 TCAAGGCTTGAGACCGAAGTCCATCTCCAGTGGTAGTGGCATTGGAAGCTCTGCTCGGGGCAGAG
* * * * *
37912385 CCCCACTCTTCATCCCATTCTGCGTTGCTTTTTGCAGGAGCTACAGTTCCACTTGCGTCGCTCAA
131 CCCCACGCTTCATCCCATGCTGCGCTGCTTTTTGCAGGAGCCACAGTTCCACTTGCATCGCTCAA
* *
37912450 GGCTTGAGACTGAATCCCATCTGCAGTGGTAGTGGCAGCTCCTCTGTTGGC
196 CGCTTGAGACTGAAGCCCATCTGCAGTGGTAGTGGCAGCTCCTCTGTTGGC
* *
37912501 AGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGATCCACAGTTCCACTCGCGTTGC
1 AGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCACAGCTCCACTCGCGTTGC
* * * * *
37912566 TCAAGGCTTGAGACTGAA-TCCCATCTGCGGTGGTCGTGGCAGTGGCATTGGCAGCTCCT-CTCT
66 TCAAGGCTTGAGACCGAAGT-CCATCTCCAGT-G--GT---AGTGGCATTGGAAGCT-CTGCTCG
* * *
37912629 GGGCAGAGCCCCAGGCTTCATCCCATGCTGGGCTGCTTTTTGCCGGAGCCACAGTTCCACTTGCA
123 GGGCAGAGCCCCACGCTTCATCCCATGCTGCGCTGCTTTTTGCAGGAGCCACAGTTCCACTTGCA
*
37912694 TTGCTCAACGCTTGAGACTGAAGCCCAT
188 TCGCTCAACGCTTGAGACTGAAGCCCAT
37912722 TGGAAGTGAC
Statistics
Matches: 188, Mismatches: 25, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
245 1 0.01
246 84 0.45
247 1 0.01
249 2 0.01
252 98 0.52
253 2 0.01
ACGTcount: A:0.17, C:0.30, G:0.26, T:0.27
Consensus pattern (246 bp):
AGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCACAGCTCCACTCGCGTTGC
TCAAGGCTTGAGACCGAAGTCCATCTCCAGTGGTAGTGGCATTGGAAGCTCTGCTCGGGGCAGAG
CCCCACGCTTCATCCCATGCTGCGCTGCTTTTTGCAGGAGCCACAGTTCCACTTGCATCGCTCAA
CGCTTGAGACTGAAGCCCATCTGCAGTGGTAGTGGCAGCTCCTCTGTTGGC
Found at i:37918009 original size:87 final size:86
Alignment explanation
Indices: 37917840--37918036 Score: 222
Period size: 85 Copynumber: 2.3 Consensus size: 86
37917830 CAAAAAAAAT
* * *
37917840 TTAATTTTTTTTTCCACTCAATTGGATATTTGAACTGTCAAAATACATCAAAAGCCCTCAAACTT
1 TTAATTTTTTTTTGCACTCAATTGAATACTTGAACTGTCAAAATACATCAAAAGCCCTCAAACTT
*** *
37917905 TTTCAAAAAAGCAATTAAG-C
66 TAAAAAAAAAACAATTAAGCC
* *
37917925 TT-ATGTTTTTTTTGCACTCAATTGAATACTTGAACAT-TCAAAATGCATCAAAAAAGCTCTCAA
1 TTAAT-TTTTTTTTGCACTCAATTGAATACTTGAAC-TGTCAAAATACATC--AAAAGCCCTCAA
37917988 A-TTTAAAAAAAAAAACAATTAAGTCC
62 ACTTT-AAAAAAAAAACAATTAAG-CC
*
37918014 TTAATTTTTTTTTGCACTTAATT
1 TTAATTTTTTTTTGCACTCAATT
37918037 TAATTGTTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
84 2 0.02
85 40 0.43
86 4 0.04
87 26 0.28
89 20 0.21
90 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (86 bp):
TTAATTTTTTTTTGCACTCAATTGAATACTTGAACTGTCAAAATACATCAAAAGCCCTCAAACTT
TAAAAAAAAAACAATTAAGCC
Found at i:37918039 original size:22 final size:23
Alignment explanation
Indices: 37918014--37918061 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
37918004 AATTAAGTCC
37918014 TTAA-TTTTTTTTTGCACTTAAT
1 TTAATTTTTTTTTTGCACTTAAT
37918036 TTAATTGTTTTTTTTTGCACTTAAT
1 TTAA-T-TTTTTTTTTGCACTTAAT
37918061 T
1 T
37918062 GAATAGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
25 19 0.83
ACGTcount: A:0.21, C:0.08, G:0.06, T:0.65
Consensus pattern (23 bp):
TTAATTTTTTTTTTGCACTTAAT
Found at i:37918218 original size:9 final size:9
Alignment explanation
Indices: 37918204--37918318 Score: 79
Period size: 9 Copynumber: 11.8 Consensus size: 9
37918194 ATAAATATCA
37918204 ATAAAAATT
1 ATAAAAATT
37918213 ATAAAAATT
1 ATAAAAATT
**
37918222 ATTAAATTTT
1 A-TAAAAATT
37918232 AATAAAAAATT
1 -AT-AAAAATT
*
37918243 ATAAAATTT
1 ATAAAAATT
37918252 ATTAAAAATT
1 A-TAAAAATT
37918262 ATAAAAAAAATT
1 AT---AAAAATT
*
37918274 ATAAAAA-A
1 ATAAAAATT
37918282 AGTAAAAAGTT
1 A-TAAAAA-TT
**
37918293 ATAAACTTTT
1 ATAAA-AATT
37918303 ATAAAAATT
1 ATAAAAATT
37918312 ATAAAAA
1 ATAAAAA
37918319 AAAATAAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
8 1 0.01
9 38 0.46
10 28 0.34
11 7 0.08
12 9 0.11
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:37918219 original size:10 final size:10
Alignment explanation
Indices: 37918206--37918319 Score: 76
Period size: 10 Copynumber: 11.5 Consensus size: 10
37918196 AAATATCAAT
37918206 AAAAATTAT-
1 AAAAATTATA
*
37918215 AAAAATTATT
1 AAAAATTATA
**
37918225 AAATTTTAATA
1 AAAAATT-ATA
37918236 AAAAATTAT-
1 AAAAATTATA
* *
37918245 AAAATTTATT
1 AAAAATTATA
37918255 AAAAATTATAAA
1 AAAAATTAT--A
37918267 AAAAATTATA
1 AAAAATTATA
37918277 AAAAA--AGTA
1 AAAAATTA-TA
*
37918286 AAAAGTTATA
1 AAAAATTATA
***
37918296 AACTTTTAT-
1 AAAAATTATA
37918305 AAAAATTATA
1 AAAAATTATA
37918315 AAAAA
1 AAAAA
37918320 AAATAAAATA
Statistics
Matches: 81, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
8 1 0.01
9 29 0.36
10 34 0.42
11 8 0.10
12 9 0.11
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:37918227 original size:19 final size:19
Alignment explanation
Indices: 37918205--37918318 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 19
37918195 TAAATATCAA
37918205 TAAAAATTATAAAAATTAT
1 TAAAAATTATAAAAATTAT
**
37918224 TAAATTTTAATAAAAAATTA-
1 TAAAAATT-AT-AAAAATTAT
*
37918244 TAAAATTTATTAAAAATTAT
1 TAAAAATTA-TAAAAATTAT
* * *
37918264 AAAAAAAATTATAAAAA-AAG
1 --TAAAAATTATAAAAATTAT
* *
37918284 TAAAAAGTTAT-AAACTTTT
1 TAAAAA-TTATAAAAATTAT
37918303 ATAAAAATTATAAAAA
1 -TAAAAATTATAAAAA
37918319 AAAATAAAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 19
0.69 0.12 0.18
Matches are distributed among these distances:
18 8 0.11
19 23 0.32
20 20 0.28
21 14 0.19
22 7 0.10
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (19 bp):
TAAAAATTATAAAAATTAT
Found at i:37918242 original size:30 final size:30
Alignment explanation
Indices: 37918206--37918280 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
37918196 AAATATCAAT
*
37918206 AAAAATTATAAAAATTATT-AAATTTTAATA
1 AAAAATTATAAAAATTATTAAAATTATAA-A
*
37918236 AAAAATTATAAAATTTATTAAAAATTATAAA
1 AAAAATTATAAAAATTATT-AAAATTATAAA
37918267 AAAAATTATAAAAA
1 AAAAATTATAAAAA
37918281 AAGTAAAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 18 0.45
31 14 0.35
32 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAAATTATAAAAATTATTAAAATTATAAA
Found at i:37918276 original size:12 final size:12
Alignment explanation
Indices: 37918255--37918282 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
37918245 AAAATTTATT
37918255 AAAAATTATAAA
1 AAAAATTATAAA
37918267 AAAAATTATAAA
1 AAAAATTATAAA
37918279 AAAA
1 AAAA
37918283 GTAAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:37918295 original size:31 final size:31
Alignment explanation
Indices: 37918225--37918297 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
37918215 AAAAATTATT
* ** *
37918225 AAATTTTAATAAAAAATTATAAAATTTATTAA
1 AAATTATAA-AAAAAATTATAAAATAAAGTAA
37918257 AAATTATAAAAAAAATTATAAAA-AAAGTAA
1 AAATTATAAAAAAAATTATAAAATAAAGTAA
37918287 AAAGTTATAAA
1 AAA-TTATAAA
37918298 CTTTTATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 7 0.19
31 21 0.58
32 8 0.22
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (31 bp):
AAATTATAAAAAAAATTATAAAATAAAGTAA
Found at i:37918295 original size:50 final size:48
Alignment explanation
Indices: 37918204--37918339 Score: 150
Period size: 50 Copynumber: 2.8 Consensus size: 48
37918194 ATAAATATCA
** * * *
37918204 ATAAAAATTATAAAAATTATTAAATTTTAATAAAAAATTATAAAA-TTT
1 ATAAAAATTATAAAAAAAAATAAA-ATAAATAAAAAATTATAAAATTTT
* *
37918252 ATTAAAAATTATAAAAAAAATTATAAAA-AAAGTAAAAAGTTATAAACTTTT
1 A-TAAAAATTATAAAAAAAA--ATAAAATAAA-TAAAAAATTATAAAATTTT
37918303 ATAAAAATTATAAAAAAAAATAAAATAAATAAAAAAT
1 ATAAAAATTATAAAAAAAAATAAAATAAATAAAAAAT
37918340 ACTTTTTAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
48 14 0.19
49 21 0.28
50 31 0.42
51 8 0.11
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (48 bp):
ATAAAAATTATAAAAAAAAATAAAATAAATAAAAAATTATAAAATTTT
Found at i:37918594 original size:16 final size:17
Alignment explanation
Indices: 37918573--37918605 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37918563 TTTTTATTAA
37918573 AATTTTATAA-TTTTAT
1 AATTTTATAACTTTTAT
*
37918589 AATTTTTTAACTTTTAT
1 AATTTTATAACTTTTAT
37918606 TGATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTATAACTTTTAT
Found at i:37918813 original size:85 final size:87
Alignment explanation
Indices: 37918681--37918886 Score: 269
Period size: 88 Copynumber: 2.4 Consensus size: 87
37918671 AATTAAGATG
* *
37918681 GTTCAAGTACCCAATTGAATGAAAAAAAAAAGACTTCATTG-TCTTTTTAA-AAAAAGT-TTGAG
1 GTTCAAGTACCCAATTGAGTGAAAAAAAAAAGACTTAATTGTTCTTTTTAAGAAAAA-TATTGAG
37918743 -GGCTTTTTTAATACATTTTGAAA
65 AGGCTTTTTT-ATACATTTTGAAA
* *
37918766 GTTCAAGTACCCAATTGAGTGTAAAAAAAAAGACTTAATTGGTTTTTTTTAAGAAAAATATTGAG
1 GTTCAAGTACCCAATTGAGTGAAAAAAAAAAGACTTAATT-GTTCTTTTTAAGAAAAATATTGAG
* *
37918831 AGTCTTTTTTATGCATTTTGAAA
65 AGGCTTTTTTATACATTTTGAAA
*
37918854 GTTCAAGTATCCAAGTT-AGTGCAAAAAAAAAAG
1 GTTCAAGTACCCAA-TTGAGTG-AAAAAAAAAAG
37918887 GGGGGTTAAT
Statistics
Matches: 106, Mismatches: 8, Indels: 10
0.85 0.06 0.08
Matches are distributed among these distances:
85 37 0.35
86 1 0.01
87 9 0.08
88 39 0.37
89 20 0.19
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (87 bp):
GTTCAAGTACCCAATTGAGTGAAAAAAAAAAGACTTAATTGTTCTTTTTAAGAAAAATATTGAGA
GGCTTTTTTATACATTTTGAAA
Found at i:37918918 original size:88 final size:86
Alignment explanation
Indices: 37918681--37918926 Score: 259
Period size: 88 Copynumber: 2.8 Consensus size: 86
37918671 AATTAAGATG
* * * * *
37918681 GTTCAAGTACCCAATTGAATGAAAAAAAAAAGACTTCATT-GTCTTTTTAAAAAAAGTTTGAGGG
1 GTTCAAGTACCCAATTGAGTGAAAAAAAAAAGACTTAATTGGTTTTTTTTAGAAAAGTTTGAGGG
37918745 CTTTTTTAATACATTTTGAAA
66 CTTTTTTAATACATTTTGAAA
* *
37918766 GTTCAAGTACCCAATTGAGTGTAAAAAAAAAGACTTAATTGGTTTTTTTTAAGAAAAATATTGAG
1 GTTCAAGTACCCAATTGAGTGAAAAAAAAAAGACTTAATTGGTTTTTTTT-AGAAAAGT-TTGAG
* *
37918831 AGTCTTTTTT-ATGCATTTTGAAA
64 -GGCTTTTTTAATACATTTTGAAA
* ** **
37918854 GTTCAAGTATCCAAGTT-AGTGCAAAAAAAAAAGGGGGGTTAATT-GTTTTTTTT-TTAAAGTTT
1 GTTCAAGTACCCAA-TTGAGTG-AAAAAAAAAA---GACTTAATTGGTTTTTTTTAGAAAAGTTT
37918916 GAGGGCTTTTT
61 GAGGGCTTTTT
37918927 ACACCATTAA
Statistics
Matches: 135, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
85 37 0.27
86 7 0.05
87 13 0.10
88 39 0.29
89 23 0.17
91 9 0.07
92 7 0.05
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (86 bp):
GTTCAAGTACCCAATTGAGTGAAAAAAAAAAGACTTAATTGGTTTTTTTTAGAAAAGTTTGAGGG
CTTTTTTAATACATTTTGAAA
Found at i:37919323 original size:5 final size:5
Alignment explanation
Indices: 37919306--37919343 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
37919296 AACCCTTTTT
*
37919306 CTCT- CTCTT CTCTA CTCTA CTCTA CTCTA CTCTA CTCT
1 CTCTA CTCTA CTCTA CTCTA CTCTA CTCTA CTCTA CTCT
37919344 CTTCTATCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.13, C:0.42, G:0.00, T:0.45
Consensus pattern (5 bp):
CTCTA
Found at i:37919430 original size:13 final size:13
Alignment explanation
Indices: 37919408--37919437 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37919398 CAAGGCTGTC
*
37919408 TTCTTTCTCTTCT
1 TTCTTCCTCTTCT
37919421 TTCTTCCTCTTCT
1 TTCTTCCTCTTCT
37919434 TTCT
1 TTCT
37919438 CTCTCCCTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCTTCCTCTTCT
Found at i:37923697 original size:6 final size:6
Alignment explanation
Indices: 37923686--37923714 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
37923676 ATCCCACCCT
37923686 CTTTCC CTTTCC CTTTCC CTTTCC CTTTC
1 CTTTCC CTTTCC CTTTCC CTTTCC CTTTC
37923715 TGTTTTCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
CTTTCC
Found at i:37924056 original size:18 final size:16
Alignment explanation
Indices: 37924024--37924067 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
37924014 ATGGAATGAG
37924024 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
37924040 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
37924054 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
37924068 ACCCTAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:37926206 original size:15 final size:16
Alignment explanation
Indices: 37926179--37926208 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37926169 TTCGAATTAA
37926179 ACAATACAAATAATAT
1 ACAATACAAATAATAT
37926195 ACAATA-AAATAATA
1 ACAATACAAATAATA
37926209 AGTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
ACAATACAAATAATAT
Found at i:37931040 original size:23 final size:23
Alignment explanation
Indices: 37930998--37931056 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
37930988 ATTTTTTTTT
37930998 ATTTTATATATTT-TAATTTT-TCA
1 ATTTTATAT-TTTATAATTTTGT-A
*
37931021 ATTTTATATTTTATAGTTTTGTA
1 ATTTTATATTTTATAATTTTGTA
*
37931044 A-TTTATTTTTTAT
1 ATTTTATATTTTAT
37931057 TTTATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 14 0.44
23 17 0.53
24 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (23 bp):
ATTTTATATTTTATAATTTTGTA
Found at i:37931359 original size:20 final size:18
Alignment explanation
Indices: 37931330--37931378 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
37931320 GCCACGTCAA
*
37931330 AAAATAATTTTAAAATTATT
1 AAAATTATTTTAAAA-TA-T
37931350 AAAATTATTTTTTAAAATAT
1 AAAATTA--TTTTAAAATAT
37931370 AAAATTATT
1 AAAATTATT
37931379 AAAATCATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.08
20 14 0.54
21 2 0.08
22 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATTATTTTAAAATAT
Found at i:37931559 original size:29 final size:30
Alignment explanation
Indices: 37931499--37931572 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
37931489 TAAATAATTT
37931499 TAAAATTATTAAAATTATTTTTAAAAAATA
1 TAAAATTATTAAAATTATTTTTAAAAAATA
* *
37931529 TAAAATTGTTAAAATTATTTTT-TAAAATA
1 TAAAATTATTAAAATTATTTTTAAAAAATA
37931558 TAAAATTATTAAAAT
1 TAAAATTATTAAAAT
37931573 CATCATCATC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 20 0.49
30 21 0.51
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (30 bp):
TAAAATTATTAAAATTATTTTTAAAAAATA
Found at i:37932479 original size:11 final size:11
Alignment explanation
Indices: 37932463--37932515 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
37932453 TTATATTTAA
37932463 AAAATAATTTT
1 AAAATAATTTT
37932474 AAAATAATTTT
1 AAAATAATTTT
*
37932485 ---ATATTTTT
1 AAAATAATTTT
37932493 AAAAATTAATTTT
1 -AAAA-TAATTTT
37932506 AAAATAATTT
1 AAAATAATTT
37932516 GTTGATGTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
8 7 0.20
11 17 0.49
12 5 0.14
13 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:37932482 original size:30 final size:31
Alignment explanation
Indices: 37932446--37932515 Score: 115
Period size: 32 Copynumber: 2.3 Consensus size: 31
37932436 TGATGATTTT
37932446 AATAATTTTATA-TTTAAAAAATAATTTTAA
1 AATAATTTTATATTTTAAAAAATAATTTTAA
*
37932476 AATAATTTTATATTTTTAAAAATTAATTTTAA
1 AATAATTTTATA-TTTTAAAAAATAATTTTAA
37932508 AATAATTT
1 AATAATTT
37932516 GTTGATGTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
30 12 0.32
32 25 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
AATAATTTTATATTTTAAAAAATAATTTTAA
Found at i:37932986 original size:23 final size:23
Alignment explanation
Indices: 37932960--37933018 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
37932950 TTATCTACCT
* *
37932960 TTGTAACACGTTTTTTCTTTGCA
1 TTGTAACACGCTTTTCCTTTGCA
** *
37932983 TTGTGGCACGCTTTTCCTTTGTA
1 TTGTAACACGCTTTTCCTTTGCA
**
37933006 TTGTGGCACGCTT
1 TTGTAACACGCTT
37933019 CTGCCTTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (23 bp):
TTGTAACACGCTTTTCCTTTGCA
Found at i:37935733 original size:24 final size:21
Alignment explanation
Indices: 37935705--37935758 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 21
37935695 ATTTAAAGAA
37935705 ATGAAAATAGTTTTAAAATGTCTT
1 ATGAAAATAG-TTTAAAAT-T-TT
37935729 ATGAAAATAGTTTAAAATTTT
1 ATGAAAATAGTTTAAAATTTT
*
37935750 ATCAAAATA
1 ATGAAAATA
37935759 ATGTCCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 8 0.28
24 10 0.34
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGAAAATAGTTTAAAATTTT
Found at i:37936438 original size:18 final size:19
Alignment explanation
Indices: 37936406--37936444 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
37936396 TATTTTTATT
**
37936406 AATTTAAAATTTTAAA-AA
1 AATTTAAAAACTTAAATAA
37936424 AATTTAAAAACTTAAATAA
1 AATTTAAAAACTTAAATAA
37936443 AA
1 AA
37936445 AATTTTCCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTTAAAAACTTAAATAA
Found at i:37939224 original size:12 final size:13
Alignment explanation
Indices: 37939196--37939254 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
37939186 TAAACTAAGC
37939196 TTTTCAAAAGT-AT
1 TTTTCAAAA-TCAT
37939209 TTTTCAAAATCAT
1 TTTTCAAAATCAT
*
37939222 TTTTCCAAAA-CAC
1 TTTT-CAAAATCAT
*
37939235 TTTT-AAAAGCAT
1 TTTTCAAAATCAT
37939247 TTTTCAAA
1 TTTTCAAA
37939255 TGTAATGCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 4 0.10
12 7 0.17
13 24 0.60
14 5 0.12
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (13 bp):
TTTTCAAAATCAT
Found at i:37939453 original size:15 final size:14
Alignment explanation
Indices: 37939422--37939460 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
37939412 AATATCTATA
37939422 TTTTAATTTGATCT
1 TTTTAATTTGATCT
*
37939436 TTTTAATCTTGTTCT
1 TTTTAAT-TTGATCT
37939451 TTTTGAATTT
1 TTTT-AATTT
37939461 TGAAATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (14 bp):
TTTTAATTTGATCT
Found at i:37941657 original size:109 final size:109
Alignment explanation
Indices: 37941516--37941733 Score: 400
Period size: 109 Copynumber: 2.0 Consensus size: 109
37941506 TCTGTACTTC
* * *
37941516 AAAATGAAGCTGCATGGCTGGTATGTTTTTTTTCTCATTATTAAATAATTGTGGGAGTTTTGTTT
1 AAAATCAAGCTGCATGGCTGGTATGTCTTTTTTCTCATTATTAAATAATTGTGGGAATTTTGTTT
37941581 AGTGATTAGTTCTATTGATTTGTTGCTTAGTACAGTCATGCATG
66 AGTGATTAGTTCTATTGATTTGTTGCTTAGTACAGTCATGCATG
*
37941625 AAAATCAAGCTGCATGGCTGGTATGTCTTTTTTCTCATTATTAAATAGTTGTGGGAATTTTGTTT
1 AAAATCAAGCTGCATGGCTGGTATGTCTTTTTTCTCATTATTAAATAATTGTGGGAATTTTGTTT
37941690 AGTGATTAGTTCTATTGATTTGTTGCTTAGTACAGTCATGCATG
66 AGTGATTAGTTCTATTGATTTGTTGCTTAGTACAGTCATGCATG
37941734 TGGTTATTTA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 105 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (109 bp):
AAAATCAAGCTGCATGGCTGGTATGTCTTTTTTCTCATTATTAAATAATTGTGGGAATTTTGTTT
AGTGATTAGTTCTATTGATTTGTTGCTTAGTACAGTCATGCATG
Found at i:37946911 original size:160 final size:157
Alignment explanation
Indices: 37946562--37946922 Score: 483
Period size: 157 Copynumber: 2.3 Consensus size: 157
37946552 TATAAAATTA
* * * * * *
37946562 TCACGTTATGAAATTTTGATGAGATACAAGTTCAAAGAACAAAAAGAACCAAATTGCCATAAACT
1 TCACATTATCAAATTTTGATGAAATCCAAGTTCAAAGACCAAAAAGAACCAAATTACCATAAACT
* * *
37946627 TGACAACTAAATCCATTTTGATCCTAGAAATTGTCAAATGTATACATTCAATGACGTAACATAAG
66 TGACAACTAAATCCATTTTGATCCTAGAAATTGACAAACGTATACATTCAATGACGGAACATAAG
*
37946692 ATTGTACCCTATCATCACCTTTAGGAG
131 ATTGTACCATATCATCACCTTTAGGAG
* * * *
37946719 TCACATTATCAAATTTTGATGAAATCCAAGTTCAAACACCAGAATGAA-CATATTTACCATAAAC
1 TCACATTATCAAATTTTGATGAAATCCAAGTTCAAAGACCAAAAAGAACCA-AATTACCATAAAC
* * *
37946783 TTGACAACTAAATCCATTTTGATCCTTGTAATTGACAAACGTATA-AGTTCAATGACATGGCACT
65 TTGACAACTAAATCCATTTTGATCCTAGAAATTGACAAACGTATACA-TTCAATGAC--GGAAC-
* *
37946847 ATAAGATTGTACCATGTCATCACCTTTAGGCG
126 ATAAGATTGTACCATATCATCACCTTTAGGAG
*
37946879 TCAGATTATCAAATTTTGATGAAATCCAAGTTCAAAGACCAAAA
1 TCACATTATCAAATTTTGATGAAATCCAAGTTCAAAGACCAAAA
37946923 TAAACTTAAT
Statistics
Matches: 177, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
156 3 0.02
157 101 0.57
159 3 0.02
160 70 0.40
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (157 bp):
TCACATTATCAAATTTTGATGAAATCCAAGTTCAAAGACCAAAAAGAACCAAATTACCATAAACT
TGACAACTAAATCCATTTTGATCCTAGAAATTGACAAACGTATACATTCAATGACGGAACATAAG
ATTGTACCATATCATCACCTTTAGGAG
Found at i:37949804 original size:18 final size:20
Alignment explanation
Indices: 37949776--37949812 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
37949766 TCCAGCTTAA
37949776 AATATATATA-TTTTATTCT
1 AATATATATATTTTTATTCT
37949795 AATA-ATATATTTTTATTC
1 AATATATATATTTTTATTC
37949813 ATTAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATATATATTTTTATTCT
Found at i:37950749 original size:29 final size:29
Alignment explanation
Indices: 37950713--37950797 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
37950703 AATGTATGAT
37950713 AAAATTATATTTTAATTTTTAAAAATAAA
1 AAAATTATATTTTAATTTTTAAAAATAAA
* *
37950742 AAAATTAT-TTAATT-GTTTTTAAAAATAAT
1 AAAATTATATT--TTAATTTTTAAAAATAAA
* *
37950771 AAAATTATATCTTAATCTCTTAAAAAT
1 AAAATTATATTTTAAT-TTTTAAAAAT
37950798 TTATAACTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 4 0.09
29 30 0.65
30 12 0.26
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (29 bp):
AAAATTATATTTTAATTTTTAAAAATAAA
Found at i:37957014 original size:14 final size:14
Alignment explanation
Indices: 37956998--37957048 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
37956988 AAACACAATA
* *
37956998 TATATGTATGTATA
1 TATATATATGTATG
*
37957012 TATATATATGTACG
1 TATATATATGTATG
37957026 TATATATATGTATG
1 TATATATATGTATG
*
37957040 TATGTATAT
1 TATATATAT
37957049 ATAAAATGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (14 bp):
TATATATATGTATG
Found at i:37957018 original size:18 final size:18
Alignment explanation
Indices: 37956995--37957051 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
37956985 AGAAAACACA
37956995 ATATATATGTATGTATAT
1 ATATATATGTATGTATAT
*
37957013 ATATATATGTACGTATAT
1 ATATATATGTATGTATAT
*
37957031 ATATGTATGTATGTATAT
1 ATATATATGTATGTATAT
37957049 ATA
1 ATA
37957052 AAATGTATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (18 bp):
ATATATATGTATGTATAT
Found at i:37959547 original size:199 final size:199
Alignment explanation
Indices: 37959328--37959698 Score: 645
Period size: 199 Copynumber: 1.9 Consensus size: 199
37959318 ACATAGGTAT
* *
37959328 TGTATGTGCTCGAACCCTAATTTTTTAGGATAAACAATATGTTCTTCTCCACT-GAAACTACTCG
1 TGTATGTGCTCGAACCCTAATTTTTTAGGATAAACAACATCTTCTTCTCCACTAG-AACTACTCG
* *
37959392 TTGAGATCAAATCTACCATTATTTTTACCTGCGTTCTCTCATTAGTCAGGACTTGGAATCCAAAA
65 TTGAGATCAAATCTACCATTATTTTTACCTGCGTACTCTCAATAGTCAGGACTTGGAATCCAAAA
* *
37959457 GTAGAGCCACCTATTTTCTTTGAATGTAGAGTCTTCAAATTAGGCACACACATATTACATATACA
130 GTAGAGCCACCCATTTTCTTTGAATGTAAAGTCTTCAAATTAGGCACACACATATTACATATACA
37959522 AGTGC
195 AGTGC
37959527 TGTATGTGCTCGAACCCTAATTTTTTAGGATAAACAACATCTTCTTCTCCACTAGAACTACTCGT
1 TGTATGTGCTCGAACCCTAATTTTTTAGGATAAACAACATCTTCTTCTCCACTAGAACTACTCGT
* * *
37959592 TGGGATCAAATCTACCATTATTTTTACCTGTGTACTCTCAATAGTCAGGATTTGGAATCCAAAAG
66 TGAGATCAAATCTACCATTATTTTTACCTGCGTACTCTCAATAGTCAGGACTTGGAATCCAAAAG
37959657 TAGAGCCACCCATTTTCTTTGAATGTAAAGTCTTCAAATTAG
131 TAGAGCCACCCATTTTCTTTGAATGTAAAGTCTTCAAATTAG
37959699 ATTGTTTGTT
Statistics
Matches: 162, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
199 161 0.99
200 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (199 bp):
TGTATGTGCTCGAACCCTAATTTTTTAGGATAAACAACATCTTCTTCTCCACTAGAACTACTCGT
TGAGATCAAATCTACCATTATTTTTACCTGCGTACTCTCAATAGTCAGGACTTGGAATCCAAAAG
TAGAGCCACCCATTTTCTTTGAATGTAAAGTCTTCAAATTAGGCACACACATATTACATATACAA
GTGC
Found at i:37962237 original size:56 final size:55
Alignment explanation
Indices: 37962126--37962241 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 55
37962116 TTTCTAAAAA
* * * ** *
37962126 TAATTTTAATTAGGTTTTCAAATTTTTTAAAATTCTCATTATATATTTTATTTTT
1 TAATTTTAATTAAGTTCTCAAATTTTTTAAAATTCTCATAATATATTAAAATTTT
*
37962181 TAATTTTAATTAAGTTGCTCAAATTTTTTATTAATT-TCATAA-ATAATTAAAATTTT
1 TAATTTTAATTAAGTT-CTCAAATTTTTTA-AAATTCTCATAATAT-ATTAAAATTTT
37962237 TAATT
1 TAATT
37962242 AAACCCTGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
55 17 0.33
56 30 0.59
57 4 0.08
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.56
Consensus pattern (55 bp):
TAATTTTAATTAAGTTCTCAAATTTTTTAAAATTCTCATAATATATTAAAATTTT
Found at i:37985763 original size:18 final size:17
Alignment explanation
Indices: 37985740--37985773 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37985730 TTGTTGAATC
*
37985740 AATTTTTTTAATATTTTA
1 AATTTTTATAA-ATTTTA
37985758 AATTTTTATAAATTTT
1 AATTTTTATAAATTTT
37985774 TAATAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTTTATAAATTTTA
Found at i:37995609 original size:24 final size:25
Alignment explanation
Indices: 37995582--37995630 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
37995572 TAAGATGACT
37995582 ATATATAAAATT-TT-AATAAATAAA
1 ATATATAAAATTATTAAAT-AATAAA
37995606 ATATATAAAATTATTAAATAATAAA
1 ATATATAAAATTATTAAATAATAAA
37995631 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.52
25 8 0.35
26 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATATAAAATTATTAAATAATAAA
Found at i:37995623 original size:22 final size:23
Alignment explanation
Indices: 37995582--37995626 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
37995572 TAAGATGACT
37995582 ATATATAAAATTTTAATAAATAAA
1 ATATATAAAA-TTTAATAAATAAA
*
37995606 ATATATAAAA-TTATTAAATAA
1 ATATATAAAATTTAATAAATAA
37995627 TAAATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
24 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATATAAAATTTAATAAATAAA
Found at i:37995637 original size:13 final size:13
Alignment explanation
Indices: 37995595--37995641 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
37995585 TATAAAATTT
37995595 TAATAAA-TAAAA
1 TAATAAATTAAAA
37995607 TATATAAAATTATTAAA
1 TA-AT-AAATTA--AAA
37995624 TAATAAATTAAAA
1 TAATAAATTAAAA
37995637 TAATA
1 TAATA
37995642 TAGAGATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
12 2 0.07
13 10 0.33
14 3 0.10
15 8 0.27
16 2 0.07
17 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAATAAATTAAAA
Found at i:37997089 original size:19 final size:17
Alignment explanation
Indices: 37997057--37997092 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
37997047 ATGTATTTTG
37997057 AAATTAAAAAATATATT
1 AAATTAAAAAATATATT
37997074 AAATGTAAAAATATATATT
1 AAAT-TAAAAA-ATATATT
37997093 TTTTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATTAAAAAATATATT
Found at i:38000102 original size:12 final size:13
Alignment explanation
Indices: 38000078--38000110 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
38000068 AATTTTAGTA
38000078 AAATTTGATTTTT-
1 AAATTT-ATTTTTG
38000091 AAATTTATTTTTG
1 AAATTTATTTTTG
38000104 AAATTTA
1 AAATTTA
38000111 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (13 bp):
AAATTTATTTTTG
Found at i:38003151 original size:2 final size:2
Alignment explanation
Indices: 38003146--38003172 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38003136 ATAATGTAAT
38003146 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
38003173 TAAGTGTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38005229 original size:2 final size:2
Alignment explanation
Indices: 38005222--38005252 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38005212 TGTTCAAAGT
38005222 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38005253 GCAAATTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38005723 original size:2 final size:2
Alignment explanation
Indices: 38005716--38005756 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
38005706 ATTATCGTTA
*
38005716 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38005757 AAAAATAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:38006444 original size:24 final size:24
Alignment explanation
Indices: 38006393--38006444 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
38006383 CTCAAATTTT
* *
38006393 AATTTATCTACTTTTATTTTTAAT
1 AATTTATCTACTTTTATTTTGAAA
38006417 AATTTAGTCT-CTTTTATTTTGAAA
1 AATTTA-TCTACTTTTATTTTGAAA
38006441 AATT
1 AATT
38006445 AAACTTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.58
Consensus pattern (24 bp):
AATTTATCTACTTTTATTTTGAAA
Found at i:38018430 original size:239 final size:239
Alignment explanation
Indices: 38018008--38018477 Score: 861
Period size: 239 Copynumber: 2.0 Consensus size: 239
38017998 ATTTCATGGT
*
38018008 ATTAAGATAGTTGGTCATCTTCAACTGTGGAACTAAATTAGAAAGTGTTTTTGAAAAATTAGATT
1 ATTAAGATAGTTGGTCATCTTCAACTATGGAACTAAATTAGAAAGTGTTTTTGAAAAATTAGATT
38018073 CGAAAAGCATTTGATGGATGGCAAAAGCCCTTTATTTAACTTTGTTTTATTATAAAGTGGTTTTT
66 CGAAAAGCATTTGATGGATGGCAAAAGCCCTTTATTTAACTTTGTTTTATTATAAAGTGGTTTTT
*
38018138 GACATCCAAAAGCAACCCTAAACACTCTTAGGGTGTGCTTGGTTATAGAAAGAGGGAATGGAAAG
131 GACATCCAAAAGCAACCCTAAACACTCTTAGGGTGTGCTTGGTTATAGAAAGAGGGAATGGAAAA
38018203 GTGGAAACAAAATGTATTTCGAGTGTTC-TTGATAAGTGGATTTC
196 GTGGAAACAAAATGTATTTCGAGTG-TCGTTGATAAGTGGATTTC
* *
38018247 ATTAAGATAGTTGGTCATCTTCAACTATGGAACTAAATTAGAAAGTGTTTTTGAATAATTCGATT
1 ATTAAGATAGTTGGTCATCTTCAACTATGGAACTAAATTAGAAAGTGTTTTTGAAAAATTAGATT
38018312 CGAAAAGCATTTGATGGATGGCAAAAGCCCTTTATTTAACTTTGTTTTATTATAAAGTGGTTTTT
66 CGAAAAGCATTTGATGGATGGCAAAAGCCCTTTATTTAACTTTGTTTTATTATAAAGTGGTTTTT
* * *
38018377 GACATCCGAAAGCAACCCTAAACGCTCTTAGGGTGTGCTTGGTTATGGAAAGAGGGAATGGAAAA
131 GACATCCAAAAGCAACCCTAAACACTCTTAGGGTGTGCTTGGTTATAGAAAGAGGGAATGGAAAA
38018442 GTGGAAACAAAATGTATTTCGAGTGTCGTTGATAAG
196 GTGGAAACAAAATGTATTTCGAGTGTCGTTGATAAG
38018478 AAAGAGAAGT
Statistics
Matches: 223, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
238 2 0.01
239 221 0.99
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (239 bp):
ATTAAGATAGTTGGTCATCTTCAACTATGGAACTAAATTAGAAAGTGTTTTTGAAAAATTAGATT
CGAAAAGCATTTGATGGATGGCAAAAGCCCTTTATTTAACTTTGTTTTATTATAAAGTGGTTTTT
GACATCCAAAAGCAACCCTAAACACTCTTAGGGTGTGCTTGGTTATAGAAAGAGGGAATGGAAAA
GTGGAAACAAAATGTATTTCGAGTGTCGTTGATAAGTGGATTTC
Found at i:38018711 original size:15 final size:17
Alignment explanation
Indices: 38018670--38018713 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
38018660 AAGAAATATT
38018670 TTCTATTTTTCTACTCA
1 TTCTATTTTTCTACTCA
*
38018687 TTCCATTTTTC-A-TCA
1 TTCTATTTTTCTACTCA
*
38018702 TTCTAATTTTCT
1 TTCTATTTTTCT
38018714 TTCCACTCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 12 0.52
16 1 0.04
17 10 0.43
ACGTcount: A:0.18, C:0.23, G:0.00, T:0.59
Consensus pattern (17 bp):
TTCTATTTTTCTACTCA
Found at i:38018890 original size:37 final size:37
Alignment explanation
Indices: 38018840--38018913 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
38018830 TGCATGGTTT
38018840 CGGATTCGAGTCTTGTAGATAGAAAAAATAAAACTGG
1 CGGATTCGAGTCTTGTAGATAGAAAAAATAAAACTGG
38018877 CGGATTCGAGTCTTGTAGATAGAAAAAATAAAACTGG
1 CGGATTCGAGTCTTGTAGATAGAAAAAATAAAACTGG
38018914 AATAACTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (37 bp):
CGGATTCGAGTCTTGTAGATAGAAAAAATAAAACTGG
Found at i:38019947 original size:112 final size:111
Alignment explanation
Indices: 38019817--38020034 Score: 382
Period size: 112 Copynumber: 2.0 Consensus size: 111
38019807 TTTATGATTT
38019817 TTGTGATGTGTATCACAAATTTTAAAAATATGTAAAATTATTAAATTTTCAAATTCATCCTTCTA
1 TTGTGATGTGTATCACAAATTTTAAAAATATGTAAAATTATTAAATTTTCAAATTCATCCTTCTA
38019882 TTATATTTCAGTTCTTATATTATTACAAAAAATCAAATAACCCTAAA
66 TTATATTTCAGTTCTTATATTATTAC-AAAAATCAAATAACCCTAAA
* * * *
38019929 TTGTGATGTGTATTACAAATTTTAAAAATTTGTAAAATTATTAATTTTTCAAATTGATCCTTCTA
1 TTGTGATGTGTATCACAAATTTTAAAAATATGTAAAATTATTAAATTTTCAAATTCATCCTTCTA
*
38019994 TTATATTTCAGTTCTTATATTATTACAAAAATTAAATAACC
66 TTATATTTCAGTTCTTATATTATTACAAAAATCAAATAACC
38020035 TTAACTTTTT
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
111 14 0.14
112 87 0.86
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (111 bp):
TTGTGATGTGTATCACAAATTTTAAAAATATGTAAAATTATTAAATTTTCAAATTCATCCTTCTA
TTATATTTCAGTTCTTATATTATTACAAAAATCAAATAACCCTAAA
Found at i:38026325 original size:213 final size:212
Alignment explanation
Indices: 38025879--38026294 Score: 567
Period size: 206 Copynumber: 2.0 Consensus size: 212
38025869 TTTGAGTACA
*
38025879 GCTGTGGAAAGCATGTGTTTAAAGAAGTAGATATCGAGAGTTAATCCCACATTGGATAGGAAAGT
1 GCTGGGGAAAGCATGTGTTT-AAGAAGTAGATATCGAGAGTTAATCCCACATTGGATAGGAAAGT
38025944 GAAGGCCTCTTTGGGCGTATAAATGGTTACACTACACATCTTATCAGACATGTTTCTCAGGAATT
65 GAAGGCCTCTTTGGGCGTATAAA-GG-T-CACTACACATCTTATCAGACATGTTTCTCAGGAATT
* * *
38026009 GAGTAATAGTCCGAATGACATGGTGATTCCTACTATAAATGTATGTGTTTGTATATCAGGGGATG
127 GAGTAATAGTCCGAATGACACGGTGATTCCTACTATAAATGTACGTGTATGTATATCAGGGGATG
38026074 AGGAATTCAAACCCAACCTTT
192 AGGAATTCAAACCCAACCTTT
* ** * *
38026095 GCTGGGGAAAGCATGTGTTT-A-AAGTAGATATCGCGCA-TTAATCCTGCTTTGGTTAGGAAAGT
1 GCTGGGGAAAGCATGTGTTTAAGAAGTAGATATCGAG-AGTTAATCCCACATTGGATAGGAAAGT
* ** * * *
38026157 GAAGGTCTCTTTGGTTGTAT-AA-G-CACTGCACATCTTATCAGACATGTTTCTCGGGAATTTAG
65 GAAGGCCTCTTTGGGCGTATAAAGGTCACTACACATCTTATCAGACATGTTTCTCAGGAATTGAG
* * * *
38026219 TAATAGTTCG-GTGACACGGTGATTCCTACTATAGATGTACGTGTATGTATATTAGGGGATGAGG
130 TAATAGTCCGAATGACACGGTGATTCCTACTATAAATGTACGTGTATGTATATCAGGGGATGAGG
38026283 AATTCAAACCCA
195 AATTCAAACCCA
38026295 TTCTTTGAGT
Statistics
Matches: 180, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
206 60 0.33
207 45 0.25
210 1 0.01
212 2 0.01
213 51 0.28
214 2 0.01
216 19 0.11
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (212 bp):
GCTGGGGAAAGCATGTGTTTAAGAAGTAGATATCGAGAGTTAATCCCACATTGGATAGGAAAGTG
AAGGCCTCTTTGGGCGTATAAAGGTCACTACACATCTTATCAGACATGTTTCTCAGGAATTGAGT
AATAGTCCGAATGACACGGTGATTCCTACTATAAATGTACGTGTATGTATATCAGGGGATGAGGA
ATTCAAACCCAACCTTT
Found at i:38035682 original size:13 final size:13
Alignment explanation
Indices: 38035643--38035684 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
38035633 AATTTAAATT
*
38035643 ATATAATTTTAAA
1 ATATTATTTTAAA
38035656 ATATT-TTTTAAA
1 ATATTATTTTAAA
38035668 AT-TTATTTATAAA
1 ATATTATTT-TAAA
38035681 ATAT
1 ATAT
38035685 ATAAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 2 0.08
12 12 0.48
13 10 0.40
14 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTATTTTAAA
Found at i:38047198 original size:1 final size:1
Alignment explanation
Indices: 38047194--38047220 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
38047184 TTTTTTTTTT
38047194 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
38047221 TTACATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:38048959 original size:60 final size:59
Alignment explanation
Indices: 38048844--38048962 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 59
38048834 TTAGTCGCTT
* * *
38048844 AACTATGAAAAGTTATAAAATGATTATCCAACTATTAGTAAATTTCTCTTTTGGTCACCC
1 AACTATGAAAAGTTATAAAATGATCACCCAACTATTA-CAAATTTCTCTTTTGGTCACCC
* * *
38048904 AACTATGAAAAGTTATAGAATGATCACCCAACTATT-CAATTTTGTCTTTTATGGTCACC
1 AACTATGAAAAGTTATAAAATGATCACCCAACTATTACAAATTTCTC-TTT-TGGTCACC
38048963 AATTGACTAC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
58 7 0.14
59 3 0.06
60 41 0.80
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (59 bp):
AACTATGAAAAGTTATAAAATGATCACCCAACTATTACAAATTTCTCTTTTGGTCACCC
Found at i:38049813 original size:24 final size:24
Alignment explanation
Indices: 38049762--38049822 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
38049752 ATAATAATTC
*
38049762 TTTTCATTTAATTAAGATAATTAG
1 TTTTCAATTAATTAAGATAATTAG
*
38049786 TTTTTAATTAATTAA-AGTAATTTA-
1 TTTTCAATTAATTAAGA-TAA-TTAG
*
38049810 TTTTCATTTAATT
1 TTTTCAATTAATT
38049823 GAATTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 27 0.87
25 3 0.10
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (24 bp):
TTTTCAATTAATTAAGATAATTAG
Found at i:38049842 original size:20 final size:20
Alignment explanation
Indices: 38049804--38049842 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38049794 TAATTAAAGT
* * *
38049804 AATTTATTTTCATTTAATTG
1 AATTTATTTTAACTAAATTG
38049824 AATTTATTTTAACTAAATT
1 AATTTATTTTAACTAAATT
38049843 ATAAATAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
AATTTATTTTAACTAAATTG
Found at i:38056331 original size:2 final size:2
Alignment explanation
Indices: 38056324--38056361 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
38056314 CATTATAACA
38056324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38056362 GAATAGAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38057080 original size:3 final size:3
Alignment explanation
Indices: 38057074--38058044 Score: 1361
Period size: 3 Copynumber: 324.0 Consensus size: 3
38057064 TTAATCCTCC
38057074 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
38057122 TAT TAT TAT TAT TAT TAT GAT TAT GAT TAT TAT TAT TAT GAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
38057170 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
38057218 TAT GAT TAT GAT TAT GAT TAT TAT TAT TAT TAT TAT TAT GAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
38057266 TAT GAT TAT TAT TAT TAT TAT TAT GAT TAT TAT TAT GAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
38057314 GAT TAT TAT TAT GAT TAT TAT TAT TAT TAT TAT GAT TAT TAT GAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
38057362 TAT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
38057410 GAT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT GAT TAT TAT TAT GAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
38057458 GAT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT TAT TAT TAT GAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
38057506 TAT TAT TAT GAT TAT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
38057554 TGT TAT TAT TAT GAT TAT TAT TAT TAT GAT TAT GAT TAT GAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
38057602 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
38057650 GAT TAT TAT TAT TAT GAT TAT TAT TAT TAT GAT TAT TAT TTT TAT GAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
38057698 TAT GAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
38057746 TAT TAT TAT TAT TAT TAT GAT TAT GAT TAT TAT GAT TAT GAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
38057794 GAT TAT TAT TAT TAT GAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
38057841 TAT TAT TAT TAT TAT TAT TAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * * *
38057889 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38057937 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38057984 TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
38058030 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
38058045 ATGTCTTACC
Statistics
Matches: 879, Mismatches: 86, Indels: 6
0.91 0.09 0.01
Matches are distributed among these distances:
2 4 0.00
3 872 0.99
4 3 0.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:38060642 original size:12 final size:12
Alignment explanation
Indices: 38060625--38060649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38060615 GGAGAGGTTA
38060625 AACTATAAAGCT
1 AACTATAAAGCT
38060637 AACTATAAAGCT
1 AACTATAAAGCT
38060649 A
1 A
38060650 TCACTTATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AACTATAAAGCT
Found at i:38079109 original size:2 final size:2
Alignment explanation
Indices: 38079102--38079165 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
38079092 TCTTTTTGTA
38079102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38079144 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
38079166 GTTTAAATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38090750 original size:20 final size:20
Alignment explanation
Indices: 38090698--38090751 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
38090688 AAAATCAACT
*
38090698 TATTTTAT-AT-TATTTTTA
1 TATTTTATAATATATATTTA
* *
38090716 AATTATT-TAAAATATATTTA
1 TATT-TTATAATATATATTTA
38090736 TATTTTATAATATATA
1 TATTTTATAATATATA
38090752 ATACAATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTTATAATATATATTTA
Found at i:38091116 original size:21 final size:21
Alignment explanation
Indices: 38091077--38091116 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38091067 ATATCAGATT
* * *
38091077 CATTATAAAAACATTCATAAA
1 CATTAAAAAAAAATGCATAAA
38091098 CATTAAAAAAAAATGCATA
1 CATTAAAAAAAAATGCATA
38091117 TATACATCTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (21 bp):
CATTAAAAAAAAATGCATAAA
Found at i:38100993 original size:74 final size:77
Alignment explanation
Indices: 38100915--38101061 Score: 246
Period size: 74 Copynumber: 1.9 Consensus size: 77
38100905 GTCTAAATTC
*
38100915 ATTCTATATGCACATTTTAATTATTTT-AAAAAGTA-TTTAAAAAAATTAAAATTA-TTTTTTTA
1 ATTCTATATGCACATTTTAATTATTTTAAAAAAATATTTTAAAAAAATTAAAATTATTTTTTTTA
38100977 CTAACATGACAT
66 CTAACATGACAT
* *
38100989 ATTCTATATGCACATTTTAATTATTTTAAAAAAATATTTTAAAAAAATTAAAGTTATTTTTTTTG
1 ATTCTATATGCACATTTTAATTATTTTAAAAAAATATTTTAAAAAAATTAAAATTATTTTTTTTA
38101054 CTAACATG
66 CTAACATG
38101062 GCATGCCACA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
74 27 0.40
75 7 0.10
76 18 0.27
77 15 0.22
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (77 bp):
ATTCTATATGCACATTTTAATTATTTTAAAAAAATATTTTAAAAAAATTAAAATTATTTTTTTTA
CTAACATGACAT
Found at i:38101034 original size:12 final size:13
Alignment explanation
Indices: 38101010--38101036 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38101000 ACATTTTAAT
38101010 TATTTTAAAAAAA
1 TATTTTAAAAAAA
38101023 TATTTTAAAAAAA
1 TATTTTAAAAAAA
38101036 T
1 T
38101037 TAAAGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTTTAAAAAAA
Found at i:38107762 original size:16 final size:16
Alignment explanation
Indices: 38107715--38107773 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
38107705 TTTAAAAATT
*
38107715 TTAATATAAT-TTAAC
1 TTAATATAATATTAAA
*
38107730 TATAAT-TAA-ATTTAA
1 T-TAATATAATATTAAA
* *
38107745 TTATTTTAATATTAAA
1 TTAATATAATATTAAA
38107761 TTAATATAATATT
1 TTAATATAATATT
38107774 TATCATCATC
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 3 0.09
15 11 0.32
16 20 0.59
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATATAATATTAAA
Found at i:38108378 original size:25 final size:25
Alignment explanation
Indices: 38108327--38108378 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
38108317 AATAATATTC
* *
38108327 GATTTGATTCAAAAATTTTTGACTT
1 GATTTGATTCAAAAATTTTTCAATT
**
38108352 GATTTGATTTGAAAATTTTTCAATT
1 GATTTGATTCAAAAATTTTTCAATT
38108377 GA
1 GA
38108379 GTTCGATTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (25 bp):
GATTTGATTCAAAAATTTTTCAATT
Found at i:38108970 original size:45 final size:45
Alignment explanation
Indices: 38108879--38108972 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
38108869 TAAAGAATAC
* * * *
38108879 AATAGTAGCATAATTCCATCAAAATTTATGCTCCAAAACTATCCA
1 AATAATAGCATAATGCAATCAAAATTTATGCTCCAAAACTACCCA
*
38108924 AATAATAGCATAATGCAATCAAAATTTATGCTCTAAAA-TCACCCA
1 AATAATAGCATAATGCAATCAAAATTTATGCTCCAAAACT-ACCCA
38108969 AATA
1 AATA
38108973 GGGAAAACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (45 bp):
AATAATAGCATAATGCAATCAAAATTTATGCTCCAAAACTACCCA
Found at i:38111858 original size:38 final size:38
Alignment explanation
Indices: 38111807--38111884 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
38111797 AAGATCATAC
38111807 ACTAACTTGGACTAAAAATATTCAAACCCCAATATAAA
1 ACTAACTTGGACTAAAAATATTCAAACCCCAATATAAA
38111845 ACTAACTTGGACTAAAAATATTCAAACCCCAATATAAA
1 ACTAACTTGGACTAAAAATATTCAAACCCCAATATAAA
38111883 AC
1 AC
38111885 CACTACCAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.50, C:0.22, G:0.05, T:0.23
Consensus pattern (38 bp):
ACTAACTTGGACTAAAAATATTCAAACCCCAATATAAA
Found at i:38112626 original size:6 final size:7
Alignment explanation
Indices: 38112613--38112638 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38112603 TTAATTTAAG
38112613 TAATTTT
1 TAATTTT
38112620 TAATTTT
1 TAATTTT
38112627 TAATTTT
1 TAATTTT
38112634 TAATT
1 TAATT
38112639 ATCAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TAATTTT
Found at i:38113549 original size:17 final size:17
Alignment explanation
Indices: 38113527--38113570 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
38113517 TTACACCATT
**
38113527 ATTCAACTCTTGCTCTA
1 ATTCAACTCTAACTCTA
* *
38113544 ATTCAACACTAACTTTA
1 ATTCAACTCTAACTCTA
38113561 ATTCAACTCT
1 ATTCAACTCT
38113571 GAACCCAACG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (17 bp):
ATTCAACTCTAACTCTA
Found at i:38117339 original size:19 final size:20
Alignment explanation
Indices: 38117298--38117341 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
38117288 ACATATTATG
*
38117298 TATAAATATTATAAATTACAA
1 TATAAATA-TATAAATAACAA
*
38117319 TATAAATA-ATAAATAATAA
1 TATAAATATATAAATAACAA
38117338 TATA
1 TATA
38117342 TATTATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
21 8 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAAATATATAAATAACAA
Found at i:38119213 original size:19 final size:21
Alignment explanation
Indices: 38119184--38119226 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
38119174 TCATGCTAAC
38119184 AAATAATTTAAAAG-TTATAA
1 AAATAATTTAAAAGATTATAA
38119204 AAAT-ATTTAAAAGATTATAA
1 AAATAATTTAAAAGATTATAA
38119224 AAA
1 AAA
38119227 AAAAGATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AAATAATTTAAAAGATTATAA
Found at i:38123916 original size:101 final size:101
Alignment explanation
Indices: 38123799--38123999 Score: 321
Period size: 101 Copynumber: 2.0 Consensus size: 101
38123789 AAAAATTACA
* * *
38123799 TTGATGATCTAGATCTTGTTAAACCGAATTTCGAAAAGAGAAAAGTGTATCTCTACCAAATACGA
1 TTGATGATCTAGATCTTGTTAAACCGAATTCCGAAAAGAAAAAAGTATATCTCTACCAAATACGA
*
38123864 GTAGTTGTTAATAATATGATTATGTAAGAAGTTATG
66 GTAGTTGTTAATAATATGATTATGTAAGAAATTATG
* * * *
38123900 TTGATGATCTGGATCTTGTTAAATCGAATTCCGAAAAGAAAAAAGTATATCTCTTCCAAATACGG
1 TTGATGATCTAGATCTTGTTAAACCGAATTCCGAAAAGAAAAAAGTATATCTCTACCAAATACGA
*
38123965 GTCGTTGTTAATAATATGATTATGTAAGAAATTAT
66 GTAGTTGTTAATAATATGATTATGTAAGAAATTAT
38124000 TGAATAATGA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 91 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (101 bp):
TTGATGATCTAGATCTTGTTAAACCGAATTCCGAAAAGAAAAAAGTATATCTCTACCAAATACGA
GTAGTTGTTAATAATATGATTATGTAAGAAATTATG
Done.