Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 47 of 163
Found at i:11619967 original size:200 final size:200
Alignment explanation
Indices: 11619523--11620163 Score: 935
Period size: 200 Copynumber: 3.2 Consensus size: 200
11619513 TTCATTGACC
* * * * * * * * *
11619523 TGGTCTTCTTCTCTATGTCTCATCAGGAAGATGACCGCGATCATCTT-TTTTAATTCGCTTCTCC
1 TGGTATTCTTCTCTGTATCTCATCAAGAAGATGACAGC-CTC-GCTTGTTTTGATTCGCTTCTCT
* * * * ** *
11619587 AGATCTCCTCAGGAAGATGAATTTGGTCCACTTCTTTGCGTCTCATCAGGAAGCTAACCTTTTTA
64 GGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTA
** * * *
11619652 TTGCTTCGACCTGCTTCTCAGCATCTCATCAGGAAGCTGGGTTCAAAGATTTGCTCGCGTTGAGC
129 TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGC
* *
11619717 GTCGAGC
194 GTTGAGT
*
11619724 TGGTATTCTTCTCTGTATCTCATCAAGAAGATGATCA-CCTCGCTTGTTTTGATTTGCTTCTCTG
1 TGGTATTCTTCTCTGTATCTCATCAAGAAGATGA-CAGCCTCGCTTGTTTTGATTCGCTTCTCTG
11619788 GATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTAT
65 GATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTAT
*
11619853 TACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCG
130 TGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCG
11619918 TTGAGT
195 TTGAGT
11619924 TGGTATTCTTCTCTGTATCTCATCAAGAAGATGACAGCCTCGCTTGTTTTGATTCGCTTCTCTGG
1 TGGTATTCTTCTCTGTATCTCATCAAGAAGATGACAGCCTCGCTTGTTTTGATTCGCTTCTCTGG
* *
11619989 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCCAACCATTTGATT
66 ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
* * * * *
11620054 GCTTCGACCCGCTTATTAGTGTCTCATTAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGC
131 GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGT
11620119 TGAGT
196 TGAGT
* *
11620124 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCT
1 TGGTATTCTTCTCTGTATCTCATCAAGAAGATGACAGCCT
11620164 ACTCCTTGAT
Statistics
Matches: 401, Mismatches: 36, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
199 5 0.01
200 364 0.91
201 31 0.08
202 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (200 bp):
TGGTATTCTTCTCTGTATCTCATCAAGAAGATGACAGCCTCGCTTGTTTTGATTCGCTTCTCTGG
ATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGTGTTGAGCGT
TGAGT
Found at i:11632452 original size:59 final size:57
Alignment explanation
Indices: 11632325--11632734 Score: 387
Period size: 59 Copynumber: 7.0 Consensus size: 57
11632315 TTTTGACTTC
* * * * * *
11632325 GGGGGTAAAGTGGTAATTTTTGGTGAAATCGAGAT-TAAAATGGGATTTTGGGAAGTTC
1 GGGGGTAAAATGGTAATTTTT-G-GAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTT
* * * * *
11632383 GAGAGCAAAATGGTAATTTTTAGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTT-G-GAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTT
* * *
11632442 AGGGGTAAAATGGTAATTTTTAGTGAAATTGGGGTCAAAAATGGAATTTTTGG-AAGTTT
1 GGGGGTAAAATGGTAATTTTT-G-GAAATCGAGGTCAAAAATGGAA-TTTTGGAAAGTTT
* * * *
11632501 GGGGGTAAAATGGTAATTTTTGGAAGTTTTGAGGTTAAGAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGAA--ATCGAGGTCAAAAATGGAATTTTGGAAAGTTT
* * *
11632560 GGGGGT-AAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTGGGAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGAA--ATCGAGGTCAAAAATGGAATTTTGGAAAGTTT
* * * * * *
11632618 GGGGGTAAAATGGTAACTTTTGGAAGCTTTGGGGTCAAAAATGGAATTTTGGGAAGCTT
1 GGGGGTAAAATGGTAATTTTTGGAA--ATCGAGGTCAAAAATGGAATTTTGGAAAGTTT
* *
11632677 GGAGGTAAAATGGTAATTTTTGGAAGCTTC-AGGGTCAAAAATGGAATTTTGGAAAGTT
1 GGGGGTAAAATGGTAATTTTTGGAA--ATCGA-GGTCAAAAATGGAATTTTGGAAAGTT
11632735 CAGGGACTAG
Statistics
Matches: 306, Mismatches: 39, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
57 3 0.01
58 88 0.29
59 209 0.68
60 6 0.02
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.33
Consensus pattern (57 bp):
GGGGGTAAAATGGTAATTTTTGGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTT
Found at i:11632492 original size:30 final size:30
Alignment explanation
Indices: 11632389--11632521 Score: 104
Period size: 29 Copynumber: 4.5 Consensus size: 30
11632379 GTTCGAGAGC
** *
11632389 AAAATGGTAATTTTTAGTGAAACCGAGGTTA
1 AAAATGGTAATTTTTAGTGAAATTG-GGGTA
11632420 AAAATGG-AA-TTTT-G-GAAAGTTTAGGGGT-
1 AAAATGGTAATTTTTAGTGAAA--TT-GGGGTA
11632448 AAAATGGTAATTTTTAGTGAAATTGGGGTCA
1 AAAATGGTAATTTTTAGTGAAATTGGGGT-A
*
11632479 AAAATGG-AATTTTT-G-GAAGTTTGGGGGT-
1 AAAATGGTAATTTTTAGTGAA-ATT-GGGGTA
11632507 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
11632522 GGAAGTTTTG
Statistics
Matches: 86, Mismatches: 4, Indels: 26
0.74 0.03 0.22
Matches are distributed among these distances:
27 4 0.05
28 18 0.21
29 24 0.28
30 21 0.24
31 15 0.17
32 4 0.05
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTTAGTGAAATTGGGGTA
Found at i:11632739 original size:29 final size:29
Alignment explanation
Indices: 11632418--11632730 Score: 265
Period size: 29 Copynumber: 10.7 Consensus size: 29
11632408 AAACCGAGGT
*
11632418 TAAAAATGGAA-TTTTGGAAAGTTTAGGGG
1 TAAAAATGGAATTTTTGG-AAGTTTCGGGG
*
11632447 T-AAAATGGTAATTTTTAGTGAA-ATT-GGGG
1 TAAAAATGG-AATTTTT-G-GAAGTTTCGGGG
*
11632476 TCAAAAATGGAATTTTTGGAAGTTTGGGGG
1 T-AAAAATGGAATTTTTGGAAGTTTCGGGG
* *
11632506 T-AAAATGGTAATTTTTGGAAGTTTTGAGGT
1 TAAAAATGG-AATTTTTGGAAGTTTCG-GGG
* *
11632536 TAAGAATGGAA-TTTTGGAAAGTTTGGGGG
1 TAAAAATGGAATTTTTGG-AAGTTTCGGGG
11632565 T--AAATGGTAATTTTTGGAAGTTTCGGGG
1 TAAAAATGG-AATTTTTGGAAGTTTCGGGG
* *
11632593 TCAAAAATGGAATTTTGGGAAGTTTGGGGG
1 T-AAAAATGGAATTTTTGGAAGTTTCGGGG
*
11632623 T-AAAATGGTAACTTTTGGAAGCTTT-GGGG
1 TAAAAATGG-AATTTTTGGAAG-TTTCGGGG
* *
11632652 TCAAAAATGGAATTTTGGGAAGCTT-GGAGG
1 T-AAAAATGGAATTTTTGGAAGTTTCGG-GG
* *
11632682 T-AAAATGGTAATTTTTGGAAGCTTCAGGG
1 TAAAAATGG-AATTTTTGGAAGTTTCGGGG
11632711 TCAAAAATGGAA-TTTTGGAA
1 T-AAAAATGGAATTTTTGGAA
11632731 AGTTCAGGGA
Statistics
Matches: 240, Mismatches: 18, Indels: 52
0.77 0.06 0.17
Matches are distributed among these distances:
27 5 0.02
28 44 0.18
29 86 0.36
30 68 0.28
31 36 0.15
32 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.34
Consensus pattern (29 bp):
TAAAAATGGAATTTTTGGAAGTTTCGGGG
Found at i:11633185 original size:21 final size:19
Alignment explanation
Indices: 11633151--11633210 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
11633141 TTATAATCAT
11633151 TATTATAAAACATTTATTAA
1 TATTAT-AAACATTTATTAA
*
11633171 TATTATTAAAGCATTTATTAT
1 TATTA-TAAA-CATTTATTAA
*
11633192 TATTACTAAACATTAATTA
1 TATTA-TAAACATTTATTA
11633211 CTATCATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (19 bp):
TATTATAAACATTTATTAA
Found at i:11633194 original size:18 final size:18
Alignment explanation
Indices: 11633149--11633210 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 18
11633139 AATTATAATC
11633149 ATTATTA-TAAAACATTT
1 ATTATTATTAAAACATTT
*
11633166 ATTAATATTATTAAAGCATTT
1 A-T--TATTATTAAAACATTT
*
11633187 ATTATTATTACTAAACATTA
1 ATTATTATTA--AAACATTT
11633207 ATTA
1 ATTA
11633211 CTATCATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.03
18 9 0.25
20 16 0.44
21 10 0.28
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTATTATTAAAACATTT
Found at i:11633982 original size:17 final size:18
Alignment explanation
Indices: 11633962--11634002 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
11633952 AATTTTATGC
*
11633962 AAATTTAAATTTAAAA-T
1 AAATTTAAACTTAAAACT
*
11633979 AAATCT-AACTTAAAACT
1 AAATTTAAACTTAAAACT
11633996 AAATTTA
1 AAATTTA
11634003 TATCTCATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTAAACTTAAAACT
Found at i:11639791 original size:23 final size:23
Alignment explanation
Indices: 11639752--11639808 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
11639742 CGTCCATCCT
* * *
11639752 TGCTTACTAGACCTTCTAGAAGC
1 TGCTGACTGGACCTTCTAAAAGC
*
11639775 TGTTGACTGGACCTTCTAAAAGC
1 TGCTGACTGGACCTTCTAAAAGC
11639798 TGCTGACTGGA
1 TGCTGACTGGA
11639809 TGCCACGTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (23 bp):
TGCTGACTGGACCTTCTAAAAGC
Found at i:11643468 original size:30 final size:30
Alignment explanation
Indices: 11643276--11643494 Score: 108
Period size: 29 Copynumber: 7.4 Consensus size: 30
11643266 ACCCGAGGGC
*
11643276 AAAATGGTAATTTTTGGTGAAA--TCGGGGTTA
1 AAAATGGTAATTTTT-G-GAAATTTAGGGG-TA
* * * *
11643307 AAAAAGGT-A-TTTTAGAAAGTTCGAGGGT-
1 AAAATGGTAATTTTTGGAAATTTAG-GGGTA
* *
11643335 AAAATGGTAATTTTTGGTGAAA-CTAGGGTTA
1 AAAATGGTAATTTTT-G-GAAATTTAGGGGTA
* *
11643366 AAAATGG-AA-TTTTAGAACATTTGGGGGT-
1 AAAATGGTAATTTTTGGAA-ATTTAGGGGTA
*
11643394 AAAATGGTAATTTTCGATGAAA-TT-GGGGTTA
1 AAAATGGTAATTTTTG--GAAATTTAGGGG-TA
11643425 AAAATGG-AA-TTTTGGAAAGTTTAGGGGT-
1 AAAATGGTAATTTTTGGAAA-TTTAGGGGTA
* * *
11643453 AAAATGGTAATTTTTGGAAGTTTCGGGGTC
1 AAAATGGTAATTTTTGGAAATTTAGGGGTA
*
11643483 AGAAT-GTAATTT
1 AAAATGGTAATTT
11643495 CCTAAAATTT
Statistics
Matches: 149, Mismatches: 17, Indels: 46
0.70 0.08 0.22
Matches are distributed among these distances:
27 11 0.07
28 22 0.15
29 48 0.32
30 37 0.25
31 24 0.16
32 7 0.05
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAATTTAGGGGTA
Found at i:11643481 original size:59 final size:59
Alignment explanation
Indices: 11643276--11643469 Score: 266
Period size: 59 Copynumber: 3.3 Consensus size: 59
11643266 ACCCGAGGGC
* * * *
11643276 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAAAGGTATTTTAGAAAG-TTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAAGTTTAG-GGGT
* * *
11643335 AAAATGGTAATTTTTGGTGAAACTAGGGTTAAAAATGGAATTTTAGAACA-TTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTAGAA-AGTTTAGGGGT
* * *
11643394 AAAATGGTAATTTTCGATGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGT
11643453 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
11643470 AAGTTTCGGG
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
58 1 0.01
59 113 0.96
60 4 0.03
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGT
Found at i:11643831 original size:34 final size:33
Alignment explanation
Indices: 11643762--11643871 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 33
11643752 TCAAACAGTC
* *
11643762 AAAGGACTAAATTGAAAATAATT--AAAAT--T
1 AAAGGACTAAATTGCAAATAATTAAAAAATGCA
*
11643791 ACAGGACTAAATTGCAAATAATTAAAAAATGCAA
1 AAAGGACTAAATTGCAAATAATTAAAAAATGC-A
** * *
11643825 AAAGGACTAAATTG-AAGCAAATAAAAAATGCG
1 AAAGGACTAAATTGCAAATAATTAAAAAATGCA
*
11643857 AAAGGAC-CAATTGCA
1 AAAGGACTAAATTGCA
11643872 CAAATAGACC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
29 21 0.32
31 10 0.15
32 8 0.12
33 14 0.21
34 13 0.20
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (33 bp):
AAAGGACTAAATTGCAAATAATTAAAAAATGCA
Found at i:11643855 original size:33 final size:33
Alignment explanation
Indices: 11643793--11643871 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
11643783 TTAAAATTAC
* *
11643793 AGGACTAAATTGCAAATAATTAAAAAATGCAAAA
1 AGGACTAAATTGCAAACAAATAAAAAATGC-AAA
* *
11643827 AGGACTAAATTG-AAGCAAATAAAAAATGCGAA
1 AGGACTAAATTGCAAACAAATAAAAAATGCAAA
*
11643859 AGGAC-CAATTGCA
1 AGGACTAAATTGCA
11643872 CAAATAGACC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 5 0.13
32 8 0.21
33 14 0.36
34 12 0.31
ACGTcount: A:0.54, C:0.11, G:0.16, T:0.18
Consensus pattern (33 bp):
AGGACTAAATTGCAAACAAATAAAAAATGCAAA
Found at i:11645490 original size:17 final size:17
Alignment explanation
Indices: 11645460--11645517 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
11645450 AATTTATTCC
11645460 AAATTT-AC-CAAATTT
1 AAATTTAACACAAATTT
11645475 AAATTTAACACAAATTT
1 AAATTTAACACAAATTT
*
11645492 AAATTTAA-AAATTAATTT
1 AAATTTAACACA--AATTT
11645510 AAATTTAA
1 AAATTTAA
11645518 ATTTTAAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
15 6 0.16
16 4 0.11
17 15 0.39
18 13 0.34
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTAACACAAATTT
Found at i:11645524 original size:18 final size:18
Alignment explanation
Indices: 11645470--11645518 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
11645460 AAATTTACCA
*
11645470 AATTTAAATTTAACACA--
1 AATTTAAATTTAA-AAATT
11645487 AATTTAAATTTAAAAATT
1 AATTTAAATTTAAAAATT
11645505 AATTTAAATTTAAA
1 AATTTAAATTTAAA
11645519 TTTTAAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 14 0.48
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAAATTTAAAAATT
Found at i:11645537 original size:24 final size:24
Alignment explanation
Indices: 11645485--11645539 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
11645475 AAATTTAACA
* *
11645485 CAAATTTAAATTTAAAAATTAATT
1 CAAATTTAAATTTAAAAATAAATC
* * *
11645509 TAAATTTAAATTTTAAGATAAATC
1 CAAATTTAAATTTAAAAATAAATC
11645533 CAAATTT
1 CAAATTT
11645540 GTGAATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
CAAATTTAAATTTAAAAATAAATC
Found at i:11647118 original size:373 final size:373
Alignment explanation
Indices: 11646388--11647494 Score: 1789
Period size: 373 Copynumber: 3.0 Consensus size: 373
11646378 TCCACTAGCT
** * * * * * * *
11646388 CTTACTTCAATTTCAGAGGGACGAAGGCTTGATATTCAACTTTACTTCAATTTCAAGAGGATA-G
1 CTTACTTCAATTTCAGA--GATAAAGACGTGTTATCCAACTCTATTTCAATTTCAAGCGGATAGG
*
11646452 AAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTT
64 AAAA-GATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTT
*
11646517 CAAGAGGATAGAAAATGATCTCACTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTC
128 CAAGAGGATAGAAAATGATCTTACTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTC
11646582 TACTTCAATTTCAAGAGGACAGGAAATGATTTTGCTCTTACTTCAATTTCAGAGATGAAGACTTG
193 TACTTCAATTTCAAGAGGACAGGAAATGATTTTGCTCTTACTTCAATTTCAGAGATGAAGACTTG
*
11646647 TTATCCAACTCTACTTCAATTTCAAGAGGGTAGGAAAAGATATTGCTCTTACCTCAATTTCAGAG
258 TTATCCAACTCTACTTCAATTTCAAGAGGGTAGGAAAAGATCTTGCTCTTACCTCAATTTCAGAG
*
11646712 ATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGATGACGTTGCC
323 ATAAAGACTTGATATCCAACTATACTTCAATTTCAAGCGGATGACGTTGCC
11646763 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTATTTCAATTTCAAGCGGATAGGAA
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTATTTCAATTTCAAGCGGATAGGAA
11646828 AAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAA
66 AAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAA
11646893 GAGGATAGAAAATGATCTTACTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTAC
131 GAGGATAGAAAATGATCTTACTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTAC
11646958 TTCAATTTCAAGAGGACAGGAAATGATTTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTA
196 TTCAATTTCAAGAGGACAGGAAATGATTTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTA
*
11647023 TCTAACTCTACTTCAATTTCAAGAGGGTAGGAAAAGATCTTGCTCTTACCTCAATTTCAGAGATA
261 TCCAACTCTACTTCAATTTCAAGAGGGTAGGAAAAGATCTTGCTCTTACCTCAATTTCAGAGATA
11647088 AAGACTTGATATCCAACTATACTTCAATTTCAAGCGGATGACGTTGCC
326 AAGACTTGATATCCAACTATACTTCAATTTCAAGCGGATGACGTTGCC
11647136 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTATTTCAATTTCAAGCGGATAGGAA
1 CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTATTTCAATTTCAAGCGGATAGGAA
*
11647201 AAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCAA
66 AAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAA
* * * * * * * *
11647266 GAGGAT-G---A-CA--TTGCTCTTACTTCAATTTCAGAGAGGCAAAGGCTTGATATCCAGCTTT
131 GAGGATAGAAAATGATCTTACTCTTACTTCAATTTCAGAGA--TAGAGACTTGTTATCCAACTCT
* * * * *
11647324 ACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGA
194 ACTTCAATTTCAAGAGGACAGGAAATGATTTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGT
* * * * * *
11647389 TATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGA
259 TATCCAACTCTACTTCAATTTCAAGAGGGTAGGAAAAGATCTTGCTCTTACCTCAATTTCAGAGA
* *
11647454 TAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGAT
324 TAAAGACTTGATATCCAACTATACTTCAATTTCAAGCGGAT
11647495 AGGAAATGAT
Statistics
Matches: 692, Mismatches: 37, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
366 23 0.03
368 174 0.25
369 1 0.00
372 1 0.00
373 471 0.68
374 5 0.01
375 17 0.02
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (373 bp):
CTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTATTTCAATTTCAAGCGGATAGGAA
AAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAA
GAGGATAGAAAATGATCTTACTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTAC
TTCAATTTCAAGAGGACAGGAAATGATTTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTA
TCCAACTCTACTTCAATTTCAAGAGGGTAGGAAAAGATCTTGCTCTTACCTCAATTTCAGAGATA
AAGACTTGATATCCAACTATACTTCAATTTCAAGCGGATGACGTTGCC
Found at i:11647508 original size:76 final size:76
Alignment explanation
Indices: 11646385--11647507 Score: 1523
Period size: 76 Copynumber: 15.0 Consensus size: 76
11646375 ATCTCCACTA
** * * *
11646385 GCTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATTCAACTTTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTCAGA--GATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
*
11646450 AGAAAATGATCTT
64 AGGAAATGATCTT
*
11646463 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
* *
11646528 AAAATGATCTC
66 GAAATGATCTT
* * * *
11646539 ACTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGACAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
11646604 GAAATGATTTT
66 GAAATGATCTT
* * *
11646615 GCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGGTAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
* *
11646680 GAAAAGATATT
66 GAAATGATCTT
* *
11646691 GCTCTTACCTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGAT--
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
11646754 G--ACG---TT
66 GAAATGATCTT
* * * * *
11646760 GCCCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTATTTCAATTTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
11646825 GAAAAGATCTT
66 GAAATGATCTT
11646836 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
11646901 AAAATGATCTT
66 GAAATGATCTT
* * * *
11646912 ACTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGACAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
11646977 GAAATGATTTT
66 GAAATGATCTT
* * * *
11646988 GCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCTAACTCTACTTCAATTTCAAGAGGGTAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
11647053 GAAAAGATCTT
66 GAAATGATCTT
* * *
11647064 GCTCTTACCTCAATTTCAGAGATAAAGACTTGATATCCAACTATACTTCAATTTCAAGCGGAT--
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
11647127 G--ACG---TT
66 GAAATGATCTT
* * * * *
11647133 GCCCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTATTTCAATTTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
11647198 GAAAAGATCTT
66 GAAATGATCTT
*
11647209 GCTCTTACTTCAATTTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCAAGAGGAT--
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
11647272 G--A-CA--TT
66 GAAATGATCTT
* * * *
11647278 GCTCTTACTTCAATTTCAGAGAGGCAAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTCAGAGA--TAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
11647343 AGGAAATGATCTT
64 AGGAAATGATCTT
* * *
11647356 ACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
11647421 GAAATGATCTT
66 GAAATGATCTT
* *
11647432 ACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
11647497 GAAATGATCTT
66 GAAATGATCTT
11647508 AGTGCTTCAT
Statistics
Matches: 936, Mismatches: 86, Indels: 48
0.87 0.08 0.04
Matches are distributed among these distances:
69 143 0.15
71 39 0.04
72 5 0.01
73 5 0.01
74 3 0.00
75 1 0.00
76 697 0.74
78 43 0.05
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (76 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
GAAATGATCTT
Found at i:11649205 original size:9 final size:9
Alignment explanation
Indices: 11649183--11649224 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
11649173 CCTTTCTATT
*
11649183 TTTTTCTTG
1 TTTTTCTTC
11649192 TTTTTGCTTC
1 TTTTT-CTTC
11649202 TTTTTCTT-
1 TTTTTCTTC
11649210 TTTCTTCTTC
1 TTT-TTCTTC
11649220 TTTTT
1 TTTTT
11649225 TTTATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 3 0.10
9 15 0.52
10 11 0.38
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.79
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:11649216 original size:15 final size:16
Alignment explanation
Indices: 11649186--11649227 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11649176 TTCTATTTTT
*
11649186 TTCTTGTTTTTGCTTC
1 TTCTTTTTTTTGCTTC
11649202 TT-TTTCTTTTT-CTTC
1 TTCTTT-TTTTTGCTTC
11649217 TTCTTTTTTTT
1 TTCTTTTTTTT
11649228 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.79
Consensus pattern (16 bp):
TTCTTTTTTTTGCTTC
Found at i:11649219 original size:18 final size:19
Alignment explanation
Indices: 11649183--11649224 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
11649173 CCTTTCTATT
11649183 TTTTTCTTGTTTTTGCTTC
1 TTTTTCTTGTTTTTGCTTC
11649202 TTTTTCTT-TTTCTT-CTTC
1 TTTTTCTTGTTT-TTGCTTC
11649220 TTTTT
1 TTTTT
11649225 TTTATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTTTCTTGTTTTTGCTTC
Found at i:11654562 original size:30 final size:30
Alignment explanation
Indices: 11654527--11654627 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
11654517 CACTCGGGGC
*
11654527 AAAATGGTAATTTTTGGTGAAACCGAGGTT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTT
* * *
11654557 AAAATGGT-A-TTTT--AGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAA--TCGAGGTT
11654585 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTT
11654615 AAAATGG-AATTTT
1 AAAATGGTAATTTT
11654628 GGAAAGTTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
26 4 0.07
28 17 0.29
29 8 0.14
30 25 0.43
32 4 0.07
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTT
Found at i:11654591 original size:58 final size:58
Alignment explanation
Indices: 11654522--11654657 Score: 227
Period size: 58 Copynumber: 2.3 Consensus size: 58
11654512 TTGGACACTC
* *
11654522 GGGGCAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAATGGTATTTTAGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAATGGAATTTTAGAAAGTTCG
* * *
11654580 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAATGGAATTTTAGAAAGTTCG
11654638 GGGGTAAAATGGTAATTTTT
1 GGGGTAAAATGGTAATTTTT
11654658 AGAAGTTTTG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAATGGAATTTTAGAAAGTTCG
Found at i:11654645 original size:28 final size:29
Alignment explanation
Indices: 11654556--11654656 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 29
11654546 AAACCGAGGT
*
11654556 TAAAATGGT-ATTTTAGAAAGTTCGGGGG
1 TAAAATGGTAATTTTGGAAAGTTCGGGGG
* *
11654584 TAAAATGGTAATTTTTGGTGAAA--TCGAGGT
1 TAAAATGGTAA-TTTT-G-GAAAGTTCGGGGG
*
11654614 TAAAATGG-AATTTTGGAAAGTTTGGGGG
1 TAAAATGGTAATTTTGGAAAGTTCGGGGG
11654642 TAAAATGGTAATTTT
1 TAAAATGGTAATTTT
11654657 TAGAAGTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
26 4 0.07
27 1 0.02
28 25 0.42
29 9 0.15
30 17 0.28
32 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.36
Consensus pattern (29 bp):
TAAAATGGTAATTTTGGAAAGTTCGGGGG
Found at i:11654670 original size:29 final size:28
Alignment explanation
Indices: 11654556--11654671 Score: 85
Period size: 28 Copynumber: 4.0 Consensus size: 28
11654546 AAACCGAGGT
* *
11654556 TAAAATGGTATTTTAGAAAGTTCGGGGG
1 TAAAATGGAATTTTAGAAAGTTTGGGGG
* * * *
11654584 TAAAATGGTAATTTTTGGTGAAA--TCGAGGT
1 TAAAATGG-AA-TTTT--AGAAAGTTTGGGGG
*
11654614 TAAAATGGAATTTTGGAAAGTTTGGGGG
1 TAAAATGGAATTTTAGAAAGTTTGGGGG
*
11654642 TAAAATGGTAATTTTTAG-AAGTTTTGGGG
1 TAAAATGG-AA-TTTTAGAAAGTTTGGGGG
11654671 T
1 T
11654672 CAGACTGTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
26 4 0.06
28 24 0.34
29 16 0.23
30 22 0.31
32 4 0.06
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (28 bp):
TAAAATGGAATTTTAGAAAGTTTGGGGG
Found at i:11655488 original size:16 final size:16
Alignment explanation
Indices: 11655469--11655503 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11655459 TTCCTTTCAT
11655469 TTTC-TTTTTAGTTTTA
1 TTTCATTTTT-GTTTTA
11655485 TTTCATTTTTGTTTTA
1 TTTCATTTTTGTTTTA
11655501 TTT
1 TTT
11655504 TTGATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTCATTTTTGTTTTA
Found at i:11655488 original size:22 final size:23
Alignment explanation
Indices: 11655463--11655510 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
11655453 TTTCTATTCC
11655463 TTTCATTTTCT-TTTTAGTTTT-A
1 TTTCATTTT-TGTTTTAGTTTTGA
*
11655485 TTTCATTTTTGTTTTATTTTTGA
1 TTTCATTTTTGTTTTAGTTTTGA
11655508 TTT
1 TTT
11655511 AAAACAGCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 1 0.04
22 18 0.78
23 4 0.17
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.75
Consensus pattern (23 bp):
TTTCATTTTTGTTTTAGTTTTGA
Found at i:11656647 original size:17 final size:16
Alignment explanation
Indices: 11656616--11656655 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
11656606 AATTTATTCC
11656616 AAATTT-ACAAAATTT
1 AAATTTAACAAAATTT
11656631 AAATTTAACACAAATTT
1 AAATTTAACA-AAATTT
11656648 AAATTTAA
1 AAATTTAA
11656656 ATTTTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 6 0.26
16 3 0.13
17 14 0.61
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTTAACAAAATTT
Found at i:11656675 original size:24 final size:23
Alignment explanation
Indices: 11656625--11656677 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
11656615 CAAATTTACA
**
11656625 AAATTTAAATTTAACACAAATTT
1 AAATTTAAATTTAACACAAATCC
* *
11656648 AAATTTAAATTTTAAGATAAATCC
1 AAATTTAAA-TTTAACACAAATCC
11656672 AAATTT
1 AAATTT
11656678 GTGAATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATTTAAATTTAACACAAATCC
Found at i:11662826 original size:2 final size:2
Alignment explanation
Indices: 11662813--11662846 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11662803 GATTGAGCAA
*
11662813 AT AT AT AA 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
11662847 TATCTAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11663847 original size:27 final size:27
Alignment explanation
Indices: 11663815--11663869 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11663805 GATTAAATTT
* * *
11663815 AATTCGGTTGTTTTCATTTTATCTTTA
1 AATTCGATTATTTTCATTATATCTTTA
*
11663842 AATTCGATTATTTTTATTATATCTTTA
1 AATTCGATTATTTTCATTATATCTTTA
11663869 A
1 A
11663870 GTTTAGTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.58
Consensus pattern (27 bp):
AATTCGATTATTTTCATTATATCTTTA
Found at i:11664291 original size:40 final size:40
Alignment explanation
Indices: 11664236--11664318 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
11664226 GCCGTTTCGG
11664236 TTATTTTATGACAATAATCGAAAATATTATTGTAAATGAA
1 TTATTTTATGACAATAATCGAAAATATTATTGTAAATGAA
11664276 TTATTTTATGACAATAATCGAAAATATTATTGTAAATGAA
1 TTATTTTATGACAATAATCGAAAATATTATTGTAAATGAA
11664316 TTA
1 TTA
11664319 GTCAAATCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.41
Consensus pattern (40 bp):
TTATTTTATGACAATAATCGAAAATATTATTGTAAATGAA
Found at i:11666419 original size:18 final size:17
Alignment explanation
Indices: 11666389--11666422 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11666379 TAAAAATAAA
11666389 AAAATTTAAAATTTTTG
1 AAAATTTAAAATTTTTG
*
11666406 AAAATTTGATAATTTTT
1 AAAATTT-AAAATTTTT
11666423 CCTGATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
AAAATTTAAAATTTTTG
Found at i:11666806 original size:3 final size:3
Alignment explanation
Indices: 11666798--11666833 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11666788 ATAGTTGATT
11666798 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11666834 GTGTTGTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11674931 original size:14 final size:14
Alignment explanation
Indices: 11674914--11674947 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11674904 TGGTGCTTAT
* *
11674914 GTGGCGATGCTGAC
1 GTGGCAATGCTAAC
11674928 GTGGCAATGCTAAC
1 GTGGCAATGCTAAC
11674942 GTGGCA
1 GTGGCA
11674948 TGTGGCGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (14 bp):
GTGGCAATGCTAAC
Found at i:11676616 original size:29 final size:28
Alignment explanation
Indices: 11676577--11676824 Score: 100
Period size: 29 Copynumber: 8.5 Consensus size: 28
11676567 ATCAGGGTTG
*
11676577 AAAATGG-AATTTTGAAAGGTTTGGGGGT
1 AAAATGGTAATTTTGAAA-GTTCGGGGGT
*
11676605 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGGTAA--TTT--TGAAAGTTCGGGGGT
*
11676635 AAAAATGG-AATTTTAGAAGGTTCGGGGGT
1 -AAAATGGTAATTTT-GAAAGTTCGGGGGT
* ***
11676664 AAAATGGTAATTTTTGGAAGTTTTAGGGT
1 AAAATGGTAA-TTTTGAAAGTTCGGGGGT
* * *
11676693 AAAATGGTAATTTTTGGTGAAA--CCGAGGTT
1 AAAATGGTAA--TTT--TGAAAGTTCGGGGGT
* * *
11676723 AAAAATGG-AATTTTAGAAGGTTTGAGGGT
1 -AAAATGGTAATTTT-GAAAGTTCGGGGGT
* ** *
11676752 AAAGTGGTAATTTTTGATGAAACT-GGGGTT
1 AAAATGGTAA-TTTTGA--AAGTTCGGGGGT
*
11676782 AAAAATGG-AATTTTAGAAGGTTCGGGGGT
1 -AAAATGGTAATTTT-GAAAGTTCGGGGGT
11676811 AAAATGGTAATTTT
1 AAAATGGTAATTTT
11676825 TGGAAGTTTC
Statistics
Matches: 165, Mismatches: 29, Indels: 51
0.67 0.12 0.21
Matches are distributed among these distances:
26 2 0.01
27 6 0.04
28 35 0.21
29 54 0.33
30 34 0.21
31 25 0.15
32 4 0.02
33 5 0.03
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.34
Consensus pattern (28 bp):
AAAATGGTAATTTTGAAAGTTCGGGGGT
Found at i:11676634 original size:59 final size:59
Alignment explanation
Indices: 11676547--11676680 Score: 218
Period size: 59 Copynumber: 2.3 Consensus size: 59
11676537 TACCCGAGGC
* *
11676547 AAAATGGTAA-TTTTGGTGAAATCAGGGTTGAAAATGGAATTTT-GAAAGGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAG-AAGGTTCGGGGGT
*
11676605 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
11676664 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
11676681 AAGTTTTAGG
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
58 10 0.14
59 60 0.85
60 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGT
Found at i:11676693 original size:88 final size:88
Alignment explanation
Indices: 11676601--11676767 Score: 289
Period size: 88 Copynumber: 1.9 Consensus size: 88
11676591 AAAGGTTTGG
* * *
11676601 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTAGAAGGTTCGAGGGTAA
11676666 AATGGTAATTTTTGGAAGTTTTA
66 AATGGTAATTTTTGGAAGTTTTA
*
11676689 GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTAGAAGGTTTGAGGGTAA
1 GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTAGAAGGTTCGAGGGTAA
*
11676754 AGTGGTAATTTTTG
66 AATGGTAATTTTTG
11676768 ATGAAACTGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 74 1.00
ACGTcount: A:0.32, C:0.02, G:0.31, T:0.35
Consensus pattern (88 bp):
GGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTAGAAGGTTCGAGGGTAA
AATGGTAATTTTTGGAAGTTTTA
Found at i:11676726 original size:59 final size:59
Alignment explanation
Indices: 11676664--11676827 Score: 231
Period size: 59 Copynumber: 2.8 Consensus size: 59
11676654 GTTCGGGGGT
* *
11676664 AAAATGGTAATTTTTGGAA-GTTTTAGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTA
1 AAAATGG-AA-TTTTAGAAGGTTTGAGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTA
* * * *
11676724 AAAATGGAATTTTAGAAGGTTTGAGGGTAAAGTGGTAATTTTTGATGAAACTGGGGTTA
1 AAAATGGAATTTTAGAAGGTTTGAGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTA
* *
11676783 AAAATGGAATTTTAGAAGGTTCGGGGGTAAAATGGTAATTTTTGG
1 AAAATGGAATTTTAGAAGGTTTGAGGGTAAAATGGTAATTTTTGG
11676828 AAGTTTCGAG
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
58 7 0.08
59 79 0.85
60 7 0.08
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (59 bp):
AAAATGGAATTTTAGAAGGTTTGAGGGTAAAATGGTAATTTTTGGTGAAACCGAGGTTA
Found at i:11676824 original size:147 final size:146
Alignment explanation
Indices: 11676547--11676833 Score: 472
Period size: 147 Copynumber: 2.0 Consensus size: 146
11676537 TACCCGAGGC
* * *
11676547 AAAATGGTAATTTTGGTGAAATCAGGGTTGAAAATGGAATTTTGAAAGGTTTGGGGGTAAAATGG
1 AAAATGGTAATTTTGGTGAAACCAGGGTTAAAAATGGAATTTTGAAAGGTTTGAGGGTAAAATGG
*
11676612 TAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATGGTAATTT
66 TAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATGGTAATTT
11676677 TTGGAAGTTTTAGGGT
131 TTGGAAGTTTTAGGGT
*
11676693 AAAATGGTAATTTTTGGTGAAACC-GAGGTTAAAAATGGAATTTT-AGAAGGTTTGAGGGTAAAG
1 AAAATGGTAA-TTTTGGTGAAACCAG-GGTTAAAAATGGAATTTTGA-AAGGTTTGAGGGTAAAA
11676756 TGGTAATTTTTGATGAAA-CTGGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATGGTA
63 TGGTAATTTTTGATGAAATC-GGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATGGTA
11676820 ATTTTTGGAAGTTT
127 ATTTTTGGAAGTTT
11676834 CGAGGTCAGA
Statistics
Matches: 132, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
146 13 0.10
147 119 0.90
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.34
Consensus pattern (146 bp):
AAAATGGTAATTTTGGTGAAACCAGGGTTAAAAATGGAATTTTGAAAGGTTTGAGGGTAAAATGG
TAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATGGTAATTT
TTGGAAGTTTTAGGGT
Found at i:11676849 original size:29 final size:29
Alignment explanation
Indices: 11676811--11676886 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
11676801 GTTCGGGGGT
*
11676811 AAAATGGTAATTTTTGGAAGTTTCGAGGTC
1 AAAAT-GTAATTTTTGGAAATTTCGAGGTC
* * *
11676841 AGAATGTAATTTCTT-GAAATTTTGGGGTC
1 AAAATGTAATTT-TTGGAAATTTCGAGGTC
*
11676870 AAAATGCAATTTTTGGA
1 AAAATGTAATTTTTGGA
11676887 CTGTTTGGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.05
29 30 0.79
30 6 0.16
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAATTTCGAGGTC
Found at i:11677588 original size:19 final size:22
Alignment explanation
Indices: 11677564--11677606 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
11677554 TAAAAATTCA
11677564 TCCTTTT-C-TTAT-TCCTTTT
1 TCCTTTTCCATTATCTCCTTTT
11677583 TCCTTTTCCATTATCTCCTTTT
1 TCCTTTTCCATTATCTCCTTTT
11677605 TC
1 TC
11677607 TTTCTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 1 0.05
21 4 0.19
22 9 0.43
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (22 bp):
TCCTTTTCCATTATCTCCTTTT
Found at i:11677999 original size:105 final size:105
Alignment explanation
Indices: 11677876--11678098 Score: 439
Period size: 105 Copynumber: 2.1 Consensus size: 105
11677866 TTATTTAATA
11677876 ATTATTAATTAATAATTTCATTAATCACCATCATTAATAATTTCATTAACACTAATTAAAAACAT
1 ATTATTAATTAATAATTTCATTAATCACCATCATTAATAATTTCATTAACACTAATTAAAAACAT
11677941 TTATTACCTCCATTTATTAATAACGTTTTTTTGTGTTATT
66 TTATTACCTCCATTTATTAATAACGTTTTTTTGTGTTATT
11677981 ATTATTAATTAATAATTTCATTAATCACCATCATTAATAATTTCATTAACACTAATTAAAAACAT
1 ATTATTAATTAATAATTTCATTAATCACCATCATTAATAATTTCATTAACACTAATTAAAAACAT
11678046 TTATTACCTCCATTTATTAATAACGTTTTTTTGTGTTATT
66 TTATTACCTCCATTTATTAATAACGTTTTTTTGTGTTATT
11678086 ATTATTAA-TAATA
1 ATTATTAATTAATA
11678099 TTAATTTATA
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 5 0.04
105 113 0.96
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.47
Consensus pattern (105 bp):
ATTATTAATTAATAATTTCATTAATCACCATCATTAATAATTTCATTAACACTAATTAAAAACAT
TTATTACCTCCATTTATTAATAACGTTTTTTTGTGTTATT
Found at i:11678879 original size:17 final size:17
Alignment explanation
Indices: 11678849--11678906 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
11678839 AATTTATTCC
11678849 AAATTT-AC-CAAATTT
1 AAATTTAACACAAATTT
11678864 AAATTTAACACAAATTT
1 AAATTTAACACAAATTT
*
11678881 AAATTTAA-AAATTAATTT
1 AAATTTAACACA--AATTT
11678899 AAATTTAA
1 AAATTTAA
11678907 ATTTTAAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
15 6 0.16
16 4 0.11
17 15 0.39
18 13 0.34
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTAACACAAATTT
Found at i:11678913 original size:18 final size:18
Alignment explanation
Indices: 11678859--11678907 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
11678849 AAATTTACCA
*
11678859 AATTTAAATTTAACACA--
1 AATTTAAATTTAA-AAATT
11678876 AATTTAAATTTAAAAATT
1 AATTTAAATTTAAAAATT
11678894 AATTTAAATTTAAA
1 AATTTAAATTTAAA
11678908 TTTTAAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 14 0.48
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAAATTTAAAAATT
Found at i:11678926 original size:24 final size:24
Alignment explanation
Indices: 11678874--11678928 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
11678864 AAATTTAACA
* *
11678874 CAAATTTAAATTTAAAAATTAATT
1 CAAATTTAAATTTAAAAATAAATC
* * *
11678898 TAAATTTAAATTTTAAGATAAATC
1 CAAATTTAAATTTAAAAATAAATC
11678922 CAAATTT
1 CAAATTT
11678929 GTGAATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
CAAATTTAAATTTAAAAATAAATC
Found at i:11680764 original size:18 final size:17
Alignment explanation
Indices: 11680743--11680780 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
11680733 TTTATATATA
11680743 TTTTTAATTAATTTTTCT
1 TTTTTAATTAATTTTT-T
*
11680761 TTTTTAATTTATTTTTT
1 TTTTTAATTAATTTTTT
11680778 TTT
1 TTT
11680781 AGAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTAATTAATTTTTT
Found at i:11685521 original size:19 final size:20
Alignment explanation
Indices: 11685494--11685535 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
11685484 TTCAAAGGAA
*
11685494 GTGTTTGATATAGAC-TTAT
1 GTGTCTGATATAGACTTTAT
*
11685513 GTGTCTGATATAGGCTTTAT
1 GTGTCTGATATAGACTTTAT
11685533 GTG
1 GTG
11685536 GGAATGGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.45
Consensus pattern (20 bp):
GTGTCTGATATAGACTTTAT
Found at i:11687613 original size:24 final size:24
Alignment explanation
Indices: 11687581--11687644 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
11687571 AACGTTTTTA
*
11687581 TTTTGATTTTCACTCCCGAAACTC
1 TTTTCATTTTCACTCCCGAAACTC
*
11687605 TTTTCATTTTCACTCTCGAAACTC
1 TTTTCATTTTCACTCCCGAAACTC
*
11687629 TTTTCATTTTCTCTCC
1 TTTTCATTTTCACTCC
11687645 AATTTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.17, C:0.30, G:0.05, T:0.48
Consensus pattern (24 bp):
TTTTCATTTTCACTCCCGAAACTC
Found at i:11694553 original size:18 final size:20
Alignment explanation
Indices: 11694525--11694565 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
11694515 TTAATTAAAA
11694525 AAAAAGAAAAGAAAGAAA-G
1 AAAAAGAAAAGAAAGAAATG
11694544 AAAAAG-AAAGAAAGAAATG
1 AAAAAGAAAAGAAAGAAATG
11694563 AAA
1 AAA
11694566 TGAAAGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAGAAAGAAATG
Found at i:11694570 original size:14 final size:13
Alignment explanation
Indices: 11694527--11694571 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
11694517 AATTAAAAAA
11694527 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
11694540 AAAGAAAAAGAAAG
1 AAAG-AAAAGAAAG
*
11694554 AAAGAAATGAAATG
1 AAAGAAAAGAAA-G
11694568 AAAG
1 AAAG
11694572 GATTTTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:11695843 original size:24 final size:24
Alignment explanation
Indices: 11695816--11696182 Score: 302
Period size: 24 Copynumber: 15.3 Consensus size: 24
11695806 TAAATTTCGA
* *
11695816 TAAATGTGTGCAAGCTGACGAGCA
1 TAAACGTGTGCAAGCTGACGAGCG
* *
11695840 TAAACGTGTACAAGTTGACGAGCG
1 TAAACGTGTGCAAGCTGACGAGCG
* **
11695864 TAAACGTATATAAGCTGACGAGCG
1 TAAACGTGTGCAAGCTGACGAGCG
* **
11695888 TAAACGTGTGCAAGCTGATGAGAA
1 TAAACGTGTGCAAGCTGACGAGCG
* *
11695912 TAAATGTGTGCAAACTGACGAGCG
1 TAAACGTGTGCAAGCTGACGAGCG
*
11695936 TAAATGTGTGCAAGCTGACGAGCG
1 TAAACGTGTGCAAGCTGACGAGCG
* **
11695960 TAAACGTATATAAGCTGACGAGCG
1 TAAACGTGTGCAAGCTGACGAGCG
* **
11695984 TAAACGTATATAAGCTGACGAGCG
1 TAAACGTGTGCAAGCTGACGAGCG
11696008 TAAACGTGTGCAAGCTGACGAGCG
1 TAAACGTGTGCAAGCTGACGAGCG
* * * ** * * * *
11696032 AAAAAGTATATAAGATTACGACCA
1 TAAACGTGTGCAAGCTGACGAGCG
* * * *
11696056 TAAACATGTGAAAGATGACGAGTG
1 TAAACGTGTGCAAGCTGACGAGCG
* * ** *
11696080 CAAACGTATATAAGCTGGCGAGCG
1 TAAACGTGTGCAAGCTGACGAGCG
*
11696104 TAAACGTGTGCAAGCTGATGAGCG
1 TAAACGTGTGCAAGCTGACGAGCG
* ** *
11696128 TAAACGTATATAAGCTGACGAGTG
1 TAAACGTGTGCAAGCTGACGAGCG
* * * * * *
11696152 TAAATGTATACATGCTGATGAGAG
1 TAAACGTGTGCAAGCTGACGAGCG
11696176 TAAACGT
1 TAAACGT
11696183 AATGAACTTG
Statistics
Matches: 273, Mismatches: 70, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 273 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (24 bp):
TAAACGTGTGCAAGCTGACGAGCG
Found at i:11696060 original size:96 final size:95
Alignment explanation
Indices: 11695816--11696183 Score: 353
Period size: 96 Copynumber: 3.8 Consensus size: 95
11695806 TAAATTTCGA
* *
11695816 TAAATGTGTGCAAGCTGACGAGC-ATAAACGTGTACAAGTTGACGAGCGTAAACGTATATAAGCT
1 TAAACGTGTGCAAGCTGACGAGCGA-AAACGTATACAAGTT-ACGAGCGTAAACGTATATAAGCT
* ** * **
11695880 GACGAGCGTAAACGTGTGCAAGCTGATGAGAA
64 GACGAGCGTAAACGTATATAAGCTGACGAGCG
* * * * * * *
11695912 TAAATGTGTGCAAACTGACGAGCGTAAATGTGTGCAAGCTGACGAGCGTAAACGTATATAAGCTG
1 TAAACGTGTGCAAGCTGACGAGCGAAAACGTATACAAG-TTACGAGCGTAAACGTATATAAGCTG
11695977 ACGAGCGTAAACGTATATAAGCTGACGAGCG
65 ACGAGCGTAAACGTATATAAGCTGACGAGCG
* * * * * * *
11696008 TAAACGTGTGCAAGCTGACGAGCGAAAAAGTATATAAGATTACGACCATAAACATGTGA-AAGAT
1 TAAACGTGTGCAAGCTGACGAGCGAAAACGTATACAAG-TTACGAGCGTAAACGTAT-ATAAGCT
* * *
11696072 GACGAGTGCAAACGTATATAAGCTGGCGAGCG
64 GACGAGCGTAAACGTATATAAGCTGACGAGCG
* * * * * * * *
11696104 TAAACGTGTGCAAGCTGATGAGCGTAAACGTATATAAGCTGACGAGTGTAAATGTATACATGCTG
1 TAAACGTGTGCAAGCTGACGAGCGAAAACGTATACAAG-TTACGAGCGTAAACGTATATAAGCTG
* *
11696169 ATGAGAGTAAACGTA
65 ACGAGCGTAAACGTA
11696184 ATGAACTTGC
Statistics
Matches: 224, Mismatches: 44, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
95 1 0.00
96 221 0.99
97 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (95 bp):
TAAACGTGTGCAAGCTGACGAGCGAAAACGTATACAAGTTACGAGCGTAAACGTATATAAGCTGA
CGAGCGTAAACGTATATAAGCTGACGAGCG
Found at i:11699086 original size:17 final size:17
Alignment explanation
Indices: 11699046--11699084 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
11699036 TTTAGTTAAG
11699046 TTTAAATTTAAGATAAA
1 TTTAAATTTAAGATAAA
11699063 TTTAAATTTAA-ATAAA
1 TTTAAATTTAAGATAAA
11699079 TTTAAA
1 TTTAAA
11699085 ATCAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAGATAAA
Found at i:11699586 original size:76 final size:76
Alignment explanation
Indices: 11699458--11700144 Score: 1045
Period size: 76 Copynumber: 9.0 Consensus size: 76
11699448 CTTTGTCTAA
* * * *
11699458 CTCTTACTCCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATG
1 CTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA
*
11699523 GGAAACGATCTTG
64 GGAAATGATCTTG
* * * *
11699536 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATGGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
*
11699601 AAACGATCTTG
66 AAATGATCTTG
11699612 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
*
11699677 AAATGATGTTG
66 AAATGATCTTG
** * *
11699688 CTCTTACTTCAATTTCAGAGATAAAGACGCGTTATCC-ACTCTATTTCAATTTCAAGAGGATAGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
* *
11699752 AAAAGGTCTTG
66 AAATGATCTTG
* * *
11699763 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCTAACTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
11699828 AAATGATCTTG
66 AAATGATCTTG
* * *
11699839 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGAATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
*
11699904 AAATGATGTTG
66 AAATGATCTTG
* * * * *
11699915 CTCTTACTTCAATTTCAGAGATCAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
11699980 AAATGATCTTG
66 AAATGATCTTG
* *
11699991 CTCTTACTTCAATTTCAGAGATAAGGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
11700056 AAATGA-CGTTG
66 AAATGATC-TTG
*
11700067 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
11700132 AAATGATCTTG
66 AAATGATCTTG
11700143 CT
1 CT
11700145 GCGGTCTGAT
Statistics
Matches: 555, Mismatches: 51, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
75 67 0.12
76 472 0.85
77 1 0.00
78 15 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (76 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
AAATGATCTTG
Found at i:11702984 original size:24 final size:24
Alignment explanation
Indices: 11702952--11703004 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
11702942 GATTGACTGA
11702952 CTGGTAATGCACCTTAACCTTCAT
1 CTGGTAATGCACCTTAACCTTCAT
11702976 CTGGTAATGCACCTTAACCTTCAT
1 CTGGTAATGCACCTTAACCTTCAT
11703000 CTGGT
1 CTGGT
11703005 GATGGAGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (24 bp):
CTGGTAATGCACCTTAACCTTCAT
Found at i:11703124 original size:30 final size:30
Alignment explanation
Indices: 11703058--11703124 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
11703048 TATGTTTTGT
* **
11703058 TATGATATGATATGATCCAATATGTTACTA
1 TATGATATGATATGATCCAATACGTTAAGA
* * *
11703088 TGTGATATGATATGGTTCAATACGTTAAGA
1 TATGATATGATATGATCCAATACGTTAAGA
11703118 TATGATA
1 TATGATA
11703125 AGTTATGTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (30 bp):
TATGATATGATATGATCCAATACGTTAAGA
Found at i:11704594 original size:27 final size:27
Alignment explanation
Indices: 11704556--11704611 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
11704546 CTAAATTCAG
*
11704556 TTCGATTATTTTAGTTTTACCTTTAAA
1 TTCGATTATTTTAATTTTACCTTTAAA
11704583 TTCGATTATTTTAATTTTACCTTTAAA
1 TTCGATTATTTTAATTTTACCTTTAAA
11704610 TT
1 TT
11704612 TGGTTTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (27 bp):
TTCGATTATTTTAATTTTACCTTTAAA
Found at i:11705452 original size:22 final size:22
Alignment explanation
Indices: 11705427--11705483 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 22
11705417 CCTTTTTTGC
11705427 TTTTGAGTATATATGTTTATTT
1 TTTTGAGTATATATGTTTATTT
11705449 TTTTGAGTATATATGTTTATTT
1 TTTTGAGTATATATGTTTATTT
*
11705471 TATTTTAGTATAT
1 T-TTTGAGTATAT
11705484 GTCCAAGATG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 23 0.70
23 10 0.30
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (22 bp):
TTTTGAGTATATATGTTTATTT
Found at i:11712981 original size:25 final size:26
Alignment explanation
Indices: 11712944--11712993 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
11712934 TATTGTTTAG
*
11712944 AATTTTTATATTTTTTAAAAAATATA
1 AATTTTGATATTTTTTAAAAAATATA
* *
11712970 AATTTTGA-ATTTTTTTATAAATAT
1 AATTTTGATATTTTTTAAAAAATAT
11712994 TTTGAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
AATTTTGATATTTTTTAAAAAATATA
Found at i:11713028 original size:20 final size:20
Alignment explanation
Indices: 11712971--11713040 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
11712961 AAAAATATAA
*
11712971 ATTTTGAATTTTTTTATAAA-T
1 ATTTTGAA--TTTTTAAAAATT
11712992 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
11713011 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTAAAAATT
11713031 ATTTTGAATT
1 ATTTTGAATT
11713041 GTATTTGGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
18 8 0.18
19 9 0.20
20 20 0.44
21 8 0.18
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:11719538 original size:58 final size:59
Alignment explanation
Indices: 11719374--11719652 Score: 336
Period size: 58 Copynumber: 4.8 Consensus size: 59
11719364 GACACTCAAT
* *
11719374 GGTAAAATGGTAATTTTT-GAAAGGTTC-AGGGTCAAAAAATGGAATTTTTAGTCATTCGGG
1 GGTAAAATGGTAATTTTTGGAAA-GTTCGA-GGT-TAAAAATGGAATTTTTAGACATTCGGG
* * * * *
11719434 GATAAAATGGTAATTTTTGGAAAGTTTGGGGTTAAAAATGAAATTTTTAGACGTTCGGG
1 GGTAAAATGGTAATTTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGGG
* *
11719493 GGTAAAATGGTAA-TTTTGGAAGGTTCGAGGTTAAAAATGGAATTTTTAGACA-TCCGG
1 GGTAAAATGGTAATTTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGGG
* * * * * *
11719550 GGTAAAATGGTAATTTTTGGAATGTTCAAGGTTAAAAATGGAA-TTTTGGAAAATTTGAG
1 GGTAAAATGGTAATTTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAG-ACATTCGGG
*
11719609 GGTAAAAT-GTAATTTTTGGAAAGTTCGAGGTCAAAAATGGAATT
1 GGTAAAATGGTAATTTTTGGAAAGTTCGAGGTTAAAAATGGAATT
11719653 CTGGAAAGTT
Statistics
Matches: 189, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
57 22 0.12
58 94 0.50
59 46 0.24
60 23 0.12
61 4 0.02
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.34
Consensus pattern (59 bp):
GGTAAAATGGTAATTTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGGG
Found at i:11719660 original size:29 final size:29
Alignment explanation
Indices: 11719377--11719663 Score: 166
Period size: 29 Copynumber: 9.8 Consensus size: 29
11719367 ACTCAATGGT
11719377 AAAATGGTAATTTTT-GAAAGGTTC-AGGGTCAA
1 AAAATGG-AATTTTTGGAAA-GTTCGA-GGT--A
* ** *
11719409 AAAATGGAATTTTTAGTCA-TTCG-GGGA
1 AAAATGGAATTTTTGGAAAGTTCGAGGTA
* *
11719436 TAAAATGGTAATTTTTGGAAAGTTTGGGGTTA
1 -AAAATGG-AATTTTTGGAAAGTTCGAGG-TA
* * * *
11719468 AAAATGAAATTTTTAG-ACGTTCGGGGGT-
1 AAAATGGAATTTTTGGAAAGTTC-GAGGTA
*
11719496 AAAATGGTAA-TTTTGGAAGGTTCGAGGTTA
1 AAAATGG-AATTTTTGGAAAGTTCGAGG-TA
* * * *
11719526 AAAATGGAATTTTTAGACA-TCCGGGGT-
1 AAAATGGAATTTTTGGAAAGTTCGAGGTA
* *
11719553 AAAATGGTAATTTTTGGAATGTTCAAGGTTA
1 AAAATGG-AATTTTTGGAAAGTTCGAGG-TA
* *
11719584 AAAATGGAA-TTTTGGAAAATTTGAGGGT-
1 AAAATGGAATTTTTGGAAAGTTCGA-GGTA
*
11719612 AAAATGTAATTTTTGGAAAGTTCGAGGTCA
1 AAAATGGAATTTTTGGAAAGTTCGAGGT-A
*
11719642 AAAATGGAA-TTCTGGAAAGTTC
1 AAAATGGAATTTTTGGAAAGTTC
11719664 AGGGATCTCC
Statistics
Matches: 198, Mismatches: 36, Indels: 45
0.71 0.13 0.16
Matches are distributed among these distances:
27 8 0.04
28 42 0.21
29 72 0.36
30 44 0.22
31 22 0.11
32 10 0.05
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.33
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAAGTTCGAGGTA
Found at i:11729529 original size:30 final size:30
Alignment explanation
Indices: 11729468--11729654 Score: 195
Period size: 30 Copynumber: 6.2 Consensus size: 30
11729458 GAAGTTTCGA
*
11729468 AAAGTTT-GAGTGTCAAAATGTAATTTTTTTG
1 AAAGTTTAGAG-GTCAAAATGTAA-TTTTTGG
11729499 AGAAGTTTAGAGGTCAAAATGTAATTTTT-G
1 A-AAGTTTAGAGGTCAAAATGTAATTTTTGG
* * *
11729529 AGAAGTTTGGGGGTTAAAATGTAATTTTTGG
1 A-AAGTTTAGAGGTCAAAATGTAATTTTTGG
*
11729560 AAAGTTTATG-GGTTAAAATGTAATTTTTGG
1 AAAGTTTA-GAGGTCAAAATGTAATTTTTGG
* *
11729590 AAAGTTTAGGGGTC-AAATGTGATTTTTGG
1 AAAGTTTAGAGGTCAAAATGTAATTTTTGG
* *
11729619 AAAGTTTA-AGGGTTAAAATGTGATTTTTGG
1 AAAGTTTAGA-GGTCAAAATGTAATTTTTGG
*
11729649 GAAGTT
1 AAAGTT
11729655 CGGGGATCTC
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
29 26 0.19
30 84 0.60
31 9 0.06
32 18 0.13
33 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.26, T:0.40
Consensus pattern (30 bp):
AAAGTTTAGAGGTCAAAATGTAATTTTTGG
Found at i:11729632 original size:59 final size:60
Alignment explanation
Indices: 11729482--11729654 Score: 217
Period size: 59 Copynumber: 2.9 Consensus size: 60
11729472 TTTGAGTGTC
* * *
11729482 AAAATGTAATTTTTTTGAGAAGTTT-AGAGGTCAAAATGTAATTTTT-GAGAAGTTTGGGGGTT
1 AAAATGTAA-TTTTTGGA-AAGTTTAAG-GGTTAAAATGTAATTTTTGGA-AAGTTTAGGGGTT
*
11729544 AAAATGTAATTTTTGGAAAGTTTATGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGG-T
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTT
* * * *
11729603 CAAATGTGATTTTTGGAAAGTTTAAGGGTTAAAATGTGATTTTTGGGAAGTT
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAATGTAATTTTTGGAAAGTT
11729655 CGGGGATCTC
Statistics
Matches: 100, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
59 48 0.48
60 33 0.33
61 10 0.10
62 9 0.09
ACGTcount: A:0.32, C:0.01, G:0.26, T:0.40
Consensus pattern (60 bp):
AAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTT
Found at i:11730661 original size:10 final size:10
Alignment explanation
Indices: 11730634--11730678 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
11730624 CAGATATTTA
*
11730634 TATATATACG
1 TATATATATG
* * *
11730644 AATCTATATA
1 TATATATATG
11730654 TATATATATG
1 TATATATATG
11730664 TATATATATG
1 TATATATATG
11730674 TATAT
1 TATAT
11730679 TTGGGTGTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (10 bp):
TATATATATG
Found at i:11730964 original size:13 final size:13
Alignment explanation
Indices: 11730928--11730957 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11730918 GTGTCAGATG
11730928 GTGGCAGAGGCAA
1 GTGGCAGAGGCAA
*
11730941 GTGGCAAAGGCAA
1 GTGGCAGAGGCAA
11730954 GTGG
1 GTGG
11730958 GTGAGGCTTG
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:0.30, C:0.13, G:0.47, T:0.10
Consensus pattern (13 bp):
GTGGCAGAGGCAA
Found at i:11731827 original size:39 final size:39
Alignment explanation
Indices: 11731784--11731904 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 39
11731774 TCATTACTTC
11731784 GGATGACTACAATCTGCCCCATGATCGGGGTAAGAGATT
1 GGATGACTACAATCTGCCCCATGATCGGGGTAAGAGATT
* * * *
11731823 GGATGATGTCTTCAATCTACTCCATGATTGGGGTAAGAGATT
1 GGATGA---CTACAATCTGCCCCATGATCGGGGTAAGAGATT
* ** * * * *
11731865 GAATGGTTGCAATCTGCCCTAGGCTCGGGGTAAGAGATT
1 GGATGACTACAATCTGCCCCATGATCGGGGTAAGAGATT
11731904 G
1 G
11731905 CTTGATGGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
39 32 0.49
42 33 0.51
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (39 bp):
GGATGACTACAATCTGCCCCATGATCGGGGTAAGAGATT
Found at i:11731919 original size:39 final size:38
Alignment explanation
Indices: 11731876--11732603 Score: 385
Period size: 39 Copynumber: 18.7 Consensus size: 38
11731866 AATGGTTGCA
* *
11731876 ATCTGCCCTAGGCTCGGGGTAAGAGATTGCTTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATTGC-TGATGGTG
*
11731915 ATCTGCCCCAAGCTCGGGGTAAAAGA-T-C-GAATGGTTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATTGCTG-ATGG-TG
* ** *
11731952 CAATCT-ACCCAGGCTCATGGTAATAGATTGGCTGATGGTG
1 --ATCTGCCCCAGGCTCGGGGTAAAAGATT-GCTGATGGTG
* * *
11731992 ATCTGCCCCAGGTTCGGGGTAAAAGA-T-CAGATGGCTACA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATTGCTGATGG-T--G
* * * * *
11732031 ATTTACCCCAGGCTCGAGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATT-GCTGATGGTG
* * * *
11732070 ATCTTCCCTAGGCTTGGGGTAAAAGA-T-C-GAAAGGCTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATTGCTG-ATGG-TG
* *
11732107 CAATCTACCCCAGGCTCGGGGTAAGAGATTGACTGATGGTG
1 --ATCTGCCCCAGGCTCGGGGTAAAAGATTG-CTGATGGTG
* * * *
11732148 ATTTGCCCCAAGCTCGAGGTAAAAGATTG--GATGGCTACA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATTGCTGATGG-T--G
*
11732187 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATT-GCTGATGGTG
* * * ****
11732226 ATCTGCCCCAAGCTCGGGGTAAAAGATCAGATGATTACA
1 ATCTGCCCCAGGCTCGGGGTAAAAGAT-TGCTGATGGTG
** * *
11732265 ATCTATCCTAGGCTCGGGGTAAAAGATTGGTTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATT-GCTGATGGTG
* * ** * *
11732304 ATCTACTCCAAACTCGGGGTAAAAGA-T-CGGATGGCTACA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATTGCTGATGG-T--G
* * *
11732343 ATTTGCCCCAGGCTCGGGGTAAGAGATTGGATGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATT-GCTGATGGTG
* * * *
11732382 ATCTACCCTAGACTCGGGGTAAAAGA-TG-GGATGGCTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATTGCTGATGG-TG
* * * *
11732419 CAATCTGCCCTAGGCTTGGGGTAAGAGATTGGCTGATAGTG
1 --ATCTGCCCCAGGCTCGGGGTAAAAGATT-GCTGATGGTG
* * *
11732460 ATATGCCTCAGGCTCGGGATAAAAGA-T-C-GAATGGCTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATTGCTG-ATGG-TG
* * * * *
11732497 CAATCTACCCCAAGCTCGGGGTAAGAGATTGATTGATAGTG
1 --ATCTGCCCCAGGCTCGGGGTAAAAGATTG-CTGATGGTG
* * * *
11732538 ATCTGCCCTAAGCTCGAGGTAAGAGATTGACTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATTG-CTGATGGTG
* * * *
11732577 ATTTGCCCGAGACTCGGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAAAGAT
11732604 CGAATGGCTG
Statistics
Matches: 519, Mismatches: 119, Indels: 102
0.70 0.16 0.14
Matches are distributed among these distances:
35 3 0.01
36 32 0.06
37 13 0.03
38 26 0.05
39 393 0.76
40 8 0.02
41 15 0.03
42 27 0.05
43 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (38 bp):
ATCTGCCCCAGGCTCGGGGTAAAAGATTGCTGATGGTG
Found at i:11732089 original size:78 final size:77
Alignment explanation
Indices: 11731874--11732564 Score: 776
Period size: 78 Copynumber: 8.9 Consensus size: 77
11731864 TGAATGGTTG
* *
11731874 CAATCTGCCCTAGGCTCGGGGTAAGAGATT-GCTTGATGGTGATCTGCCCCAAGCTCGGGGTAAA
1 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGC-TGATGGTGATCTGCCCCAAGCTCGGGGTAAA
* *
11731938 AGATCGAATGGTTG
65 AGATCG-ATGGCTA
** * * *
11731952 CAATCTA-CCCAGGCTCATGGTAATAGATTGGCTGATGGTGATCTGCCCCAGGTTCGGGGTAAAA
1 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
11732016 GATCAGATGGCTA
66 GATC-GATGGCTA
* * * * * * *
11732029 CAATTTACCCCAGGCTCGAGGTAAGAGATTGGTTGATGGTGATCTTCCCTAGGCTTGGGGTAAAA
1 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
* *
11732094 GATCGAAAGGCTG
66 GATCG-ATGGCTA
* * *
11732107 CAATCTACCCCAGGCTCGGGGTAAGAGATTGACTGATGGTGATTTGCCCCAAGCTCGAGGTAAAA
1 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
*
11732172 GATTGGATGGCTA
66 GA-TCGATGGCTA
*
11732185 CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
1 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
**
11732250 GATCAGATGATTA
66 GATC-GATGGCTA
* * * * * * *
11732263 CAATCTATCCTAGGCTCGGGGTAAAAGATTGGTTGATGGTGATCTACTCCAAACTCGGGGTAAAA
1 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
11732328 GATCGGATGGCTA
66 GATC-GATGGCTA
* * * * *
11732341 CAATTTGCCCCAGGCTCGGGGTAAGAGATTGGATGATGGTGATCT-ACCCTAGACTCGGGGTAAA
1 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAG-CTCGGGGTAAA
* *
11732405 AGATGGGATGGCTG
65 AGAT-CGATGGCTA
* * * * * * * *
11732419 CAATCTGCCCTAGGCTTGGGGTAAGAGATTGGCTGATAGTGATATGCCTCAGGCTCGGGATAAAA
1 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
*
11732484 GATCGAATGGCTG
66 GATCG-ATGGCTA
* ** * * * *
11732497 CAATCTACCCCAAGCTCGGGGTAAGAGATTGATTGATAGTGATCTGCCCTAAGCTCGAGGTAAGA
1 CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
11732562 GAT
66 GAT
11732565 TGACTGATGG
Statistics
Matches: 515, Mismatches: 88, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
77 69 0.13
78 441 0.86
79 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (77 bp):
CAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
GATCGATGGCTA
Found at i:11733790 original size:16 final size:18
Alignment explanation
Indices: 11733769--11733807 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
11733759 GTTTCACTTA
*
11733769 TTTATTTTA-TTT-TTGT
1 TTTATTTTAGTTTGATGT
11733785 TTTATTTTAGTTTGATGT
1 TTTATTTTAGTTTGATGT
11733803 TTTAT
1 TTTAT
11733808 CTCTAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.74
Consensus pattern (18 bp):
TTTATTTTAGTTTGATGT
Found at i:11736528 original size:7 final size:7
Alignment explanation
Indices: 11736512--11736543 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11736502 ACCCAAATTC
*
11736512 TTTTTTA
1 TTTTTAA
11736519 TTTTTAA
1 TTTTTAA
11736526 TTTTTAA
1 TTTTTAA
11736533 TTTTTAA
1 TTTTTAA
11736540 TTTT
1 TTTT
11736544 CAAGTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTAA
Found at i:11744964 original size:29 final size:30
Alignment explanation
Indices: 11744893--11745016 Score: 137
Period size: 29 Copynumber: 4.2 Consensus size: 30
11744883 GAAGTTTCGA
** *
11744893 AAAGTTTGGGGGTTAAAATATAATTTTT-G
1 AAAGTTTAAGGGTTAAAATGTAATTTTTGG
11744922 AGAAGTTTAAGGGTTAAAATGTAATTTTTGG
1 A-AAGTTTAAGGGTTAAAATGTAATTTTTGG
* *
11744953 AAAGTTT-AGGGTCAAAATGTAATTTTTTG
1 AAAGTTTAAGGGTTAAAATGTAATTTTTGG
* * *
11744982 AAAATTT-TGGGTTAAAATGTGATTTTTGG
1 AAAGTTTAAGGGTTAAAATGTAATTTTTGG
*
11745011 GAAGTT
1 AAAGTT
11745017 CGAGGACCTC
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 49 0.60
30 30 0.37
31 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.24, T:0.41
Consensus pattern (30 bp):
AAAGTTTAAGGGTTAAAATGTAATTTTTGG
Found at i:11745997 original size:6 final size:6
Alignment explanation
Indices: 11745983--11746032 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
11745973 ATATAAACAA
* * *
11745983 ATATTT ATATAT ATATAT ATATAT ATATAT ATATAT ATGTAT ATGTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
11746031 AT
1 AT
11746033 TTGGGTGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (6 bp):
ATATAT
Found at i:11745999 original size:8 final size:8
Alignment explanation
Indices: 11745983--11746032 Score: 73
Period size: 8 Copynumber: 6.2 Consensus size: 8
11745973 ATATAAACAA
*
11745983 ATATTTAT
1 ATATATAT
11745991 ATATATAT
1 ATATATAT
11745999 ATATATAT
1 ATATATAT
11746007 ATATATAT
1 ATATATAT
*
11746015 ATATATGT
1 ATATATAT
*
11746023 ATATGTAT
1 ATATATAT
11746031 AT
1 AT
11746033 TTGGGTGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (8 bp):
ATATATAT
Found at i:11764943 original size:29 final size:29
Alignment explanation
Indices: 11764911--11765115 Score: 144
Period size: 29 Copynumber: 7.1 Consensus size: 29
11764901 AAAATGTGAT
* *
11764911 TTTTGGATACCCGAGGGGCAAAATGGTAA
1 TTTTGGACACTCGAGGGGCAAAATGGTAA
*
11764940 TTTTGGTCACTCGA-GGGCAAAATGGTAA
1 TTTTGGACACTCGAGGGGCAAAATGGTAA
** *
11764968 TTTTCAAACACAT--AGGGGTGAAAATGGTAA
1 TTTT-GGACAC-TCGAGGGG-CAAAATGGTAA
*
11764998 TTTTTAGACACTCGAGGGTG-AAAAT-GTAA
1 -TTTTGGACACTCGAGGG-GCAAAATGGTAA
*
11765027 TTTTTGGACACTCG-GAGGCAAAATGGTAA
1 -TTTTGGACACTCGAGGGGCAAAATGGTAA
* *
11765056 TTTTTAGACACTCG-GGGGCGAAAAT-ATAA
1 -TTTTGGACACTCGAGGGGC-AAAATGGTAA
* *
11765085 TTTTTGGACAC-C--GGGGAAAAATGGTAT
1 -TTTTGGACACTCGAGGGGCAAAATGGTAA
11765112 TTTT
1 TTTT
11765116 TGGAAAAATC
Statistics
Matches: 147, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
26 9 0.06
27 7 0.05
28 27 0.18
29 69 0.47
30 26 0.18
31 8 0.05
32 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (29 bp):
TTTTGGACACTCGAGGGGCAAAATGGTAA
Found at i:11764994 original size:30 final size:30
Alignment explanation
Indices: 11764958--11765030 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
11764948 ACTCGAGGGC
11764958 AAAATGGTAATTTTCAAACACATAG-GGGTG
1 AAAATGGTAATTTTCAAACAC-TAGAGGGTG
* * *
11764988 AAAATGGTAATTTTTAGACACTCGAGGGTG
1 AAAATGGTAATTTTCAAACACTAGAGGGTG
11765018 AAAAT-GTAATTTT
1 AAAATGGTAATTTT
11765031 TGGACACTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 10 0.26
30 29 0.74
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (30 bp):
AAAATGGTAATTTTCAAACACTAGAGGGTG
Found at i:11765022 original size:88 final size:87
Alignment explanation
Indices: 11764899--11765096 Score: 224
Period size: 88 Copynumber: 2.3 Consensus size: 87
11764889 CAATCAGAGT
* * * *
11764899 TGAAAATGTGATTTTTGGATACCCGAGGGGCAAAATGGTAA-TTTTGGTCACTC-GAGGGCAAAA
1 TGAAAATGTAATTTTTAGACACCCGAGGGGCAAAAT-GTAATTTTTGGACACTCGGA-GGCAAAA
11764962 TGGTAATTTTCAAACACATAGGGG
64 TGGTAATTTTCAAACACATAGGGG
*
11764986 TGAAAATGGTAATTTTTAGACACTCGAGGGTG-AAAATGTAATTTTTGGACACTCGGAGGCAAAA
1 TGAAAAT-GTAATTTTTAGACACCCGAGGG-GCAAAATGTAATTTTTGGACACTCGGAGGCAAAA
* * *
11765050 TGGTAATTTTTAGACAC-TCGGGGG
64 TGGTAATTTTCAAACACAT-AGGGG
* * *
11765074 CGAAAATATAATTTTTGGACACC
1 TGAAAATGTAATTTTTAGACACC
11765097 GGGGAAAAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
87 25 0.27
88 66 0.70
89 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (87 bp):
TGAAAATGTAATTTTTAGACACCCGAGGGGCAAAATGTAATTTTTGGACACTCGGAGGCAAAATG
GTAATTTTCAAACACATAGGGG
Found at i:11765050 original size:58 final size:57
Alignment explanation
Indices: 11764899--11765116 Score: 217
Period size: 58 Copynumber: 3.8 Consensus size: 57
11764889 CAATCAGAGT
* * * * *
11764899 TGAAAATGTGATTTTTGGATACCCGAGGGGCAAAATGGTAA-TTTTGGTCACTCGAGGG
1 TGAAAATGTAATTTTTGGACACTC--GGGGCAAAATGGTAATTTTTAGACACTCGAGGG
* *** * *
11764957 -CAAAATGGTAATTTTCAAACACATAGGGGTGAAAATGGTAATTTTTAGACACTCGAGGG
1 TGAAAAT-GTAATTTTTGGACAC-TCGGGG-CAAAATGGTAATTTTTAGACACTCGAGGG
*
11765016 TGAAAATGTAATTTTTGGACACTCGGAGGCAAAATGGTAATTTTTAGACACTCGGGGG
1 TGAAAATGTAATTTTTGGACACTCGG-GGCAAAATGGTAATTTTTAGACACTCGAGGG
* * * *
11765074 CGAAAATATAATTTTTGGACAC-CGGGGAAAAATGGTATTTTTT
1 TGAAAATGTAATTTTTGGACACTCGGGGCAAAATGGTAATTTTT
11765117 GGAAAAATCG
Statistics
Matches: 132, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
56 16 0.12
57 12 0.09
58 70 0.53
59 29 0.22
60 5 0.04
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (57 bp):
TGAAAATGTAATTTTTGGACACTCGGGGCAAAATGGTAATTTTTAGACACTCGAGGG
Found at i:11765201 original size:58 final size:59
Alignment explanation
Indices: 11765097--11765235 Score: 192
Period size: 58 Copynumber: 2.4 Consensus size: 59
11765087 TTTGGACACC
* *
11765097 GGGG-AAAAATGGTATTTTTTGGAAAAATCGGGGTCAAAAATAGAATTTTTGGAAGTTCA
1 GGGGTAAAAAT-GTAATTTTTGGAAAAATCAGGGTCAAAAATAGAATTTTTGGAAGTTCA
* * * *
11765156 GGGGTAAAAATGTAATTTTTGG-AAAATTAGGGTTAAAAATGGAATTTTTGGAAGTTTA
1 GGGGTAAAAATGTAATTTTTGGAAAAATCAGGGTCAAAAATAGAATTTTTGGAAGTTCA
*
11765214 GGGGTAAAAATGGAATTTTTGG
1 GGGGTAAAAATGTAATTTTTGG
11765236 GAGTTCGAGG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
58 52 0.72
59 14 0.19
60 6 0.08
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (59 bp):
GGGGTAAAAATGTAATTTTTGGAAAAATCAGGGTCAAAAATAGAATTTTTGGAAGTTCA
Found at i:11765235 original size:87 final size:86
Alignment explanation
Indices: 11765126--11765320 Score: 232
Period size: 87 Copynumber: 2.2 Consensus size: 86
11765116 TGGAAAAATC
* *
11765126 GGGGTCAAAAATAGAATTTTTGGAAGTTC-AGGGGTAAAAATGTAATTTTTGGAAA-ATTAGGGT
1 GGGGT-AAAAATGGAATTTTTGGAAGTTCGA-GGGTAAAAATGTAA-TTTTAGAAACATTAGGGT
* * *
11765189 TAAAAATGGAATTTTTGGAAGTTTA
63 CAAAAATGG-AGTTTTGGAAATTTA
* * *
11765214 GGGGTAAAAATGGAATTTTTGGGAGTTCGAGGGTCAAAATGTAATTTTAGAAACTTTAGGGTCAA
1 GGGGTAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTAGAAACATTAGGGTCAA
*
11765279 AAATGGAGTTTTGGAAATTTT
66 AAATGGAGTTTTGGAAATTTA
* *
11765300 GAGGGAAAAAATGTAATTTTT
1 G-GGGTAAAAATGGAATTTTT
11765321 AGACAGTTTA
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
86 21 0.23
87 66 0.71
88 6 0.06
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (86 bp):
GGGGTAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTAGAAACATTAGGGTCAA
AAATGGAGTTTTGGAAATTTA
Found at i:11765253 original size:58 final size:57
Alignment explanation
Indices: 11765097--11765333 Score: 185
Period size: 58 Copynumber: 4.1 Consensus size: 57
11765087 TTTGGACACC
* ** * *
11765097 GGGG-AAAAATGGTATTTTTTGGAAAAATCGGGGTCAAAAATAGAATTTTTGGAAGTTCA
1 GGGGTAAAAATGG-AATTTTTGG-AAAATTAGGGTC-AAAATGGAATTTTTGGAAGTTTA
* *
11765156 GGGGTAAAAATGTAATTTTTGGAAAATTAGGGTTAAAAATGGAATTTTTGGAAGTTTA
1 GGGGTAAAAATGGAATTTTTGGAAAATTAGGG-TCAAAATGGAATTTTTGGAAGTTTA
* * * * * *
11765214 GGGGTAAAAATGGAATTTTTGG-GAGTTCGAGGGTCAAAATGTAATTTTAGAAACTTTA
1 GGGGTAAAAATGGAATTTTTGGAAAATT--AGGGTCAAAATGGAATTTTTGGAAGTTTA
* * ** * *
11765272 -GGGTCAAAAATGG-AGTTTTGGAAATTTTGAGGGAAAAAATGTAATTTTTAGACAGTTTA
1 GGGGT-AAAAATGGAATTTTTGGAAA-ATT-AGGGTCAAAATGGAATTTTTGGA-AGTTTA
11765331 GGG
1 GGG
11765334 ACCTTTGGGA
Statistics
Matches: 145, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
57 14 0.10
58 98 0.68
59 24 0.17
60 9 0.06
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (57 bp):
GGGGTAAAAATGGAATTTTTGGAAAATTAGGGTCAAAATGGAATTTTTGGAAGTTTA
Found at i:11765334 original size:29 final size:28
Alignment explanation
Indices: 11765127--11765333 Score: 166
Period size: 29 Copynumber: 7.1 Consensus size: 28
11765117 GGAAAAATCG
*
11765127 GGGTCAAAAATAG-AATTTTTGGAAGTTCA
1 GGGT-AAAAAT-GTAATTTTTGGAAGTTTA
**
11765156 GGGGTAAAAATGTAATTTTTGGAAAATTA
1 -GGGTAAAAATGTAATTTTTGGAAGTTTA
*
11765185 GGGTTAAAAATGGAATTTTTGGAAGTTTA
1 GGG-TAAAAATGTAATTTTTGGAAGTTTA
* * *
11765214 GGGGTAAAAATGGAATTTTTGGGAGTTCGA
1 -GGGTAAAAATGTAATTTTTGGAAGTT-TA
* * * *
11765244 GGGTCAAAATGTAATTTTAGAAACTTTA
1 GGGTAAAAATGTAATTTTTGGAAGTTTA
* * *
11765272 GGGTCAAAAATG-GAGTTTTGGAAATTTTGA
1 GGGT-AAAAATGTAATTTTTGG-AAGTTT-A
* *
11765302 GGGAAAAAATGTAATTTTTAGACAGTTTA
1 GGGTAAAAATGTAATTTTTGGA-AGTTTA
11765331 GGG
1 GGG
11765334 ACCTTTGGGA
Statistics
Matches: 142, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
28 14 0.10
29 106 0.75
30 22 0.15
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (28 bp):
GGGTAAAAATGTAATTTTTGGAAGTTTA
Found at i:11766559 original size:19 final size:17
Alignment explanation
Indices: 11766514--11766570 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 17
11766504 TTCAGTTTTT
*
11766514 TTATTTAATATTATTAA
1 TTATTTATTATTATTAA
11766531 TTACTATTATTATTATTAA
1 TTA-T-TTATTATTATTAA
*
11766550 TGTTATTTATTACTA-TAA
1 --TTATTTATTATTATTAA
11766568 TTA
1 TTA
11766571 ACATGCATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 3 0.09
17 3 0.09
18 4 0.12
19 20 0.59
20 1 0.03
21 3 0.09
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (17 bp):
TTATTTATTATTATTAA
Found at i:11767153 original size:11 final size:11
Alignment explanation
Indices: 11767137--11767176 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11767127 ACTTTTAAAG
11767137 TTTAAATTTAA
1 TTTAAATTTAA
* *
11767148 TTTAAAATAAA
1 TTTAAATTTAA
11767159 TTTAAATTTAA
1 TTTAAATTTAA
*
11767170 ATTAAAT
1 TTTAAAT
11767177 CCAAACTCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:11767162 original size:22 final size:23
Alignment explanation
Indices: 11767132--11767175 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
11767122 TTTGGACTTT
*
11767132 TAAAGTTTAAATTTAATTTAAAA
1 TAAAGTTTAAATTTAAATTAAAA
11767155 TAAA-TTTAAATTTAAATTAAA
1 TAAAGTTTAAATTTAAATTAAA
11767176 TCCAAACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAAGTTTAAATTTAAATTAAAA
Found at i:11767164 original size:6 final size:6
Alignment explanation
Indices: 11767130--11767240 Score: 74
Period size: 6 Copynumber: 19.5 Consensus size: 6
11767120 TATTTGGACT
*
11767130 TTTAAA GTTTAAA TTT-AA TTTAAA -ATAAA TTTAAA TTTAAA -TTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * * * * * *
11767176 TCCAAA CTCAAA -ATAAG TTCAAA TTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
11767222 --TAAA TTTAGA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTT
11767241 TAAAAATAGG
Statistics
Matches: 80, Mismatches: 17, Indels: 15
0.71 0.15 0.13
Matches are distributed among these distances:
4 4 0.05
5 21 0.26
6 49 0.61
7 6 0.08
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:11767168 original size:17 final size:17
Alignment explanation
Indices: 11767146--11767237 Score: 96
Period size: 17 Copynumber: 5.5 Consensus size: 17
11767136 GTTTAAATTT
*
11767146 AATTTAAAATAAATTTA
1 AATTTAAAATAAATTCA
* *
11767163 AATTTAAATTAAATCCA
1 AATTTAAAATAAATTCA
* * *
11767180 AACTCAAAATAAGTTCA
1 AATTTAAAATAAATTCA
*
11767197 AATTTAAATTAAATTCA
1 AATTTAAAATAAATTCA
*
11767214 AATTT-AAATAAATTTA
1 AATTTAAAATAAATTCA
*
11767230 GATTTAAA
1 AATTTAAA
11767238 TTTTAAAAAT
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
16 13 0.22
17 46 0.78
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (17 bp):
AATTTAAAATAAATTCA
Found at i:11767190 original size:34 final size:33
Alignment explanation
Indices: 11767151--11767239 Score: 115
Period size: 34 Copynumber: 2.7 Consensus size: 33
11767141 AATTTAATTT
11767151 AAAATAAATTTAAATTTAAATTAAATCCAAACTC
1 AAAATAAATTTAAATTTAAATTAAATCCAAA-TC
* * * *
11767185 AAAATAAGTTCAAATTTAAATTAAATTCAAATT
1 AAAATAAATTTAAATTTAAATTAAATCCAAATC
* *
11767218 TAAATAAATTTAGATTTAAATT
1 AAAATAAATTTAAATTTAAATT
11767240 TTAAAAATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 19 0.40
34 28 0.60
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (33 bp):
AAAATAAATTTAAATTTAAATTAAATCCAAATC
Found at i:11767878 original size:39 final size:39
Alignment explanation
Indices: 11767828--11767927 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 39
11767818 TGGTGATTTG
* ** *
11767828 CCCCAAGCTCGGGGTAAGAGATTGGATGGTTGTAACCTA
1 CCCCAAGCTCGGGGTAAAAGATTGGATAATGGTAACCTA
* * * *
11767867 CCCCAAACTCGGGGTAAAAGATTGGCTAATGGTGATCTA
1 CCCCAAGCTCGGGGTAAAAGATTGGATAATGGTAACCTA
11767906 CCCCAAGCTCGGGGTAAAAGAT
1 CCCCAAGCTCGGGGTAAAAGAT
11767928 CAGAATCTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (39 bp):
CCCCAAGCTCGGGGTAAAAGATTGGATAATGGTAACCTA
Found at i:11768338 original size:97 final size:97
Alignment explanation
Indices: 11768141--11768733 Score: 868
Period size: 97 Copynumber: 6.1 Consensus size: 97
11768131 TGGGTTTGAT
* * * * * * * *
11768141 TCTTTCTCGTCATGTTTCTAAGGTACAAGGTTTGCCATTGCGACTTAAACC-TTCGCTTGTGTCC
1 TCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCT
* *
11768205 TCGTGGTACTGGATCCACCGTTGCGACTTAGA
66 TCGTGGTACTGGATCCGCCGTTGCGGCTTAGA
* * *
11768237 TCTTTCCCTTCATGTCTCTAAGGTAC-ATGGTTCGCCGTTACGACTTAAACCTTTCCCTTGTGTC
1 TCTTTCCCTTCATGTCTCTGAGGTACTA-GGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTC
* *
11768301 TTCGTAGTACTGGATCCGCCATTGCGGCTTAGA
65 TTCGTGGTACTGGATCCGCCGTTGCGGCTTAGA
* * * *
11768334 TCTTTTCTTTCATGTCTCTGAGGCACTAGGTTCGCTATTGCGACTTAAACCTTTCCCTTGTGTCT
1 TCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCT
* * * *
11768399 TCATGGTACTAGATCTGCCATTGCGGCTTAGA
66 TCGTGGTACTGGATCCGCCGTTGCGGCTTAGA
* * * *
11768431 TCTTTCCCTTCATGTCTTTGAGGTACTAAGTTGGCCATTGCGACTTAAACCTTTCCCTTATGTCT
1 TCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCT
*
11768496 TCGTGGTACTGGATCCGCCGTTGTGGCTTAGA
66 TCGTGGTACTGGATCCGCCGTTGCGGCTTAGA
11768528 TCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCT
1 TCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCT
* *
11768593 TCATGGTACTGGATTCGCCGTTGCGGCTTAGA
66 TCGTGGTACTGGATCCGCCGTTGCGGCTTAGA
11768625 TCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCT
1 TCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCT
*
11768690 GT-ATGGTACTGGATCCGCCGTTGCGGCTTAGA
66 -TCGTGGTACTGGATCCGCCGTTGCGGCTTAGA
11768722 TCTTTCCCTTCA
1 TCTTTCCCTTCA
11768734 AATCTTCATG
Statistics
Matches: 449, Mismatches: 44, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
95 1 0.00
96 43 0.10
97 403 0.90
98 2 0.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (97 bp):
TCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCT
TCGTGGTACTGGATCCGCCGTTGCGGCTTAGA
Found at i:11772181 original size:29 final size:28
Alignment explanation
Indices: 11772148--11772208 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
11772138 GAAATGTGAT
*
11772148 TTTTGGAT-ACCCGGGGGGTAAAATGGTAA
1 TTTTGG-TCACCCGGGGGCT-AAATGGTAA
*
11772177 TTTTGGTCACTCGGGGGCTAAATGGTAA
1 TTTTGGTCACCCGGGGGCTAAATGGTAA
11772205 TTTT
1 TTTT
11772209 CGAACACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.23, C:0.11, G:0.31, T:0.34
Consensus pattern (28 bp):
TTTTGGTCACCCGGGGGCTAAATGGTAA
Found at i:11772287 original size:58 final size:57
Alignment explanation
Indices: 11772139--11772355 Score: 224
Period size: 58 Copynumber: 3.7 Consensus size: 57
11772129 TCGGAGTTGG
* * * * * *
11772139 AAATGTGATTTTTGGATACCCGGGGGGTAAAATGGTAA-TTTTGGTCACTCG-GGG-GCT
1 AAATGTAATTTTTGGACACCC--GGGGAAAAATGGTAATTTTTAGACACTCGAGGGTG-A
* * **
11772196 AAATGGTAATTTTCGAACACTTGGGGAAGAAAATGGTAATTTTTAGACACTCGAGGGTGA
1 AAAT-GTAATTTTTGGACACCCGGGG-A-AAAATGGTAATTTTTAGACACTCGAGGGTGA
11772256 AAATGTAATTTTTGGACACCCGAGGGAAAAATGGTAATTTTTAGACACTCGAGGGTGA
1 AAATGTAATTTTTGGACACCCG-GGGAAAAATGGTAATTTTTAGACACTCGAGGGTGA
* * *
11772314 AAATGTAATTTTTGGACATCCGGAGGTAAAATGGTATTTTTT
1 AAATGTAATTTTTGGACACCCGG-GGAAAAATGGTAATTTTT
11772356 GGAAAAATCA
Statistics
Matches: 135, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
56 4 0.03
57 5 0.04
58 89 0.66
59 26 0.19
60 10 0.07
61 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (57 bp):
AAATGTAATTTTTGGACACCCGGGGAAAAATGGTAATTTTTAGACACTCGAGGGTGA
Found at i:11772356 original size:29 final size:30
Alignment explanation
Indices: 11772163--11772417 Score: 180
Period size: 29 Copynumber: 8.8 Consensus size: 30
11772153 GATACCCGGG
*
11772163 GGGT-AAAATGGTAA-TTTTGGTCACTCG-
1 GGGTGAAAATGGTAATTTTTGGACACTCGA
* * * *
11772190 GGG-GCTAAATGGTAATTTTCGAACACTTG-
1 GGGTG-AAAATGGTAATTTTTGGACACTCGA
* *
11772219 GGGAAGAAAATGGTAATTTTTAGACACTCGA
1 GGG-TGAAAATGGTAATTTTTGGACACTCGA
*
11772250 GGGTGAAAAT-GTAATTTTTGGACACCCGA
1 GGGTGAAAATGGTAATTTTTGGACACTCGA
* *
11772279 GGG-AAAAATGGTAATTTTTAGACACTCGA
1 GGGTGAAAATGGTAATTTTTGGACACTCGA
11772308 GGGTGAAAAT-GTAATTTTTGGACA-TCCG-
1 GGGTGAAAATGGTAATTTTTGGACACT-CGA
* * *
11772336 GAGGT-AAAATGGTATTTTTTGGAAAAATC-A
1 G-GGTGAAAATGGTAATTTTTGG-ACACTCGA
* * * *
11772366 AGGTCAAAAATGG-AATTTTTGGA-AGTTCGG
1 GGGT-GAAAATGGTAATTTTTGGACA-CTCGA
*
11772396 GGGTAAAAAT-GTAATTTTTGGA
1 GGGTGAAAATGGTAATTTTTGGA
11772418 AAATTAGGGT
Statistics
Matches: 184, Mismatches: 25, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
27 3 0.02
28 23 0.12
29 102 0.55
30 44 0.24
31 12 0.07
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (30 bp):
GGGTGAAAATGGTAATTTTTGGACACTCGA
Found at i:11772401 original size:59 final size:59
Alignment explanation
Indices: 11772313--11772535 Score: 229
Period size: 59 Copynumber: 3.8 Consensus size: 59
11772303 CTCGAGGGTG
* * * * *
11772313 AAAATGTAATTTTTGGACA-TCCGGAGGT-AAAATGGTATTTTTTGGAAAAATCAAGGTCA
1 AAAATGGAATTTTTGGA-AGTTCGGGGGTAAAAAT-GTATTTTTTGGAAAAATTAGGGTCA
*
11772372 AAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTTGG-AAAATTAGGGTCA
1 AAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTATTTTTTGGAAAAATTAGGGTCA
* ** * **
11772430 AAAATGTAATTTTTGGAAAGTTTAGGGGTAAAAATGTATTTGTTGGAAACTTTAGGGTCA
1 AAAATGGAATTTTTGG-AAGTTCGGGGGTAAAAATGTATTTTTTGGAAAAATTAGGGTCA
* * * * *
11772490 ATAATGGAA-TTTTGGAAATTTCGAGGGCAAAAATGTAATTTTTGGA
1 AAAATGGAATTTTTGG-AAGTTCGGGGGTAAAAATGTATTTTTTGGA
11772536 TAGTTTAGGG
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
58 27 0.20
59 88 0.64
60 23 0.17
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (59 bp):
AAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTATTTTTTGGAAAAATTAGGGTCA
Found at i:11772418 original size:29 final size:29
Alignment explanation
Indices: 11772225--11772535 Score: 210
Period size: 29 Copynumber: 10.6 Consensus size: 29
11772215 CTTGGGGAAG
* * * *
11772225 AAAATGGTAATTTTTAGACACTCGAGGGTG
1 AAAAT-GTAATTTTTGGAAATTCGAGGGTA
* **
11772255 AAAATGTAATTTTTGGACACCCGAGGG-A
1 AAAATGTAATTTTTGGAAATTCGAGGGTA
* * * *
11772283 AAAATGGTAATTTTTAGACACTCGAGGGTG
1 AAAAT-GTAATTTTTGGAAATTCGAGGGTA
* *
11772313 AAAATGTAATTTTTGGACATCCG-GAGGT-
1 AAAATGTAATTTTTGGAAATTCGAG-GGTA
* * *
11772341 AAAATGGTATTTTTTGGAAAAATC-AAGGTCA
1 AAAAT-GTAATTTTTGG-AAATTCGAGGGT-A
* * *
11772372 AAAATGGAATTTTTGGAAGTTCGGGGGTA
1 AAAATGTAATTTTTGGAAATTCGAGGGTA
11772401 AAAATGTAATTTTTGGAAAATT--AGGGTCA
1 AAAATGTAATTTTTGG-AAATTCGAGGGT-A
*
11772430 AAAATGTAATTTTTGGAAAGTT-TAGGGGTA
1 AAAATGTAATTTTTGGAAA-TTCGA-GGGTA
*
11772460 AAAATGT-ATTTGTTGGAAACTT-TAGGGTCA
1 AAAATGTAATTT-TTGGAAA-TTCGAGGGT-A
* * *
11772490 ATAATGGAA-TTTTGGAAATTTCGAGGGCA
1 AAAATGTAATTTTTGGAAA-TTCGAGGGTA
11772519 AAAATGTAATTTTTGGA
1 AAAATGTAATTTTTGGA
11772536 TAGTTTAGGG
Statistics
Matches: 231, Mismatches: 31, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
28 18 0.08
29 135 0.58
30 68 0.29
31 10 0.04
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAATTCGAGGGTA
Found at i:11774465 original size:6 final size:6
Alignment explanation
Indices: 11774432--11774541 Score: 56
Period size: 6 Copynumber: 19.5 Consensus size: 6
11774422 TATTTGGACT
*
11774432 TTTAAA GTTTAAA TTT--A TTTAAA -ATAAA TTTAAA TTTAAA -TTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * * * * * * *
11774477 TCCAAA CTCAAA -ATAAG TTCAAA TTTAAA -GTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
11774523 --TAAA TTTAGA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTT
11774542 TAAAAATGGG
Statistics
Matches: 76, Mismatches: 19, Indels: 17
0.68 0.17 0.15
Matches are distributed among these distances:
4 8 0.11
5 15 0.20
6 47 0.62
7 6 0.08
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:11774468 original size:17 final size:17
Alignment explanation
Indices: 11774448--11774538 Score: 94
Period size: 17 Copynumber: 5.4 Consensus size: 17
11774438 GTTTAAATTT
*
11774448 ATTTAAAATAAATTTAA
1 ATTTAAAATAAATTCAA
* *
11774465 ATTTAAATTAAATCCAA
1 ATTTAAAATAAATTCAA
* * *
11774482 ACTCAAAATAAGTTCAA
1 ATTTAAAATAAATTCAA
*
11774499 ATTTAAAGTAAATTCAA
1 ATTTAAAATAAATTCAA
* *
11774516 ATTT-AAATAAATTTAG
1 ATTTAAAATAAATTCAA
11774532 ATTTAAA
1 ATTTAAA
11774539 TTTTAAAAAT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
16 13 0.22
17 45 0.78
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTTAAAATAAATTCAA
Found at i:11774477 original size:21 final size:22
Alignment explanation
Indices: 11774434--11774476 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11774424 TTTGGACTTT
*
11774434 TAAAGTTTAAATTTATTTAAAA
1 TAAAGTTTAAATTTAATTAAAA
11774456 TAAA-TTTAAATTTAAATTAAA
1 TAAAGTTTAAATTT-AATTAAA
11774477 TCCAAACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAAGTTTAAATTTAATTAAAA
Found at i:11774490 original size:34 final size:33
Alignment explanation
Indices: 11774452--11774540 Score: 106
Period size: 34 Copynumber: 2.7 Consensus size: 33
11774442 AAATTTATTT
11774452 AAAATAAATTTAAATTTAAATTAAATCCAAACTC
1 AAAATAAATTTAAATTTAAATTAAATCCAAA-TC
* * * * *
11774486 AAAATAAGTTCAAATTTAAAGTAAATTCAAATT
1 AAAATAAATTTAAATTTAAATTAAATCCAAATC
* *
11774519 TAAATAAATTTAGATTTAAATT
1 AAAATAAATTTAAATTTAAATT
11774541 TTAAAAATGG
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 18 0.40
34 27 0.60
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (33 bp):
AAAATAAATTTAAATTTAAATTAAATCCAAATC
Found at i:11805027 original size:16 final size:17
Alignment explanation
Indices: 11804992--11805030 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
11804982 GGGTTTAGAG
*
11804992 ATAAAACATCAAACTAAA
1 ATAAAACA-CAAAATAAA
11805010 ATAAAACA-AAAATAAA
1 ATAAAACACAAAATAAA
11805026 ATAAA
1 ATAAA
11805031 TAAGTGAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (17 bp):
ATAAAACACAAAATAAA
Found at i:11806796 original size:39 final size:38
Alignment explanation
Indices: 11806752--11807544 Score: 218
Period size: 39 Copynumber: 20.4 Consensus size: 38
11806742 TTGAAGATTC
* * *
11806752 CGATCTGTTACCCCGAGCTTGGTGCAGATTACAGCCATT
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCACA-CCATT
* * * * * *
11806791 CGATCTCTTACCCTGAGTTTGGGGTAAATCACCATCAGT
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCA-CACCATT
* * * *
11806830 CAATCTCTTACCCCGAGCTTAGGGCAGATCACTATCAAT
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCAC-ACCATT
* **
11806869 CAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATT
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCACA-CCATT
* * * * ** **
11806908 CGATCTTTTATCCCGAGCTTGAGGCATATCACTATTAGC
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCAC-ACCATT
* * * * * * **
11806947 CAATATCTTACCCCAAGCCTAGGGTAGATTGCAGCCATT
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCACA-CCATT
* * * * **
11806986 CGATCTTTTACCCCGAG-TCTAGGGTAGATCACCATCAGC
1 CGATCTCTTACCCCGAGCT-TGGGGCAGATCA-CACCATT
* * * * * *
11807025 CAATCTCTTACCCCGAGCCTGTGGCAAATTACAGCCATC
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCACA-CCATT
* * * * * **
11807064 CGATCTTTTACCCCGAGTTTGGAGTAGATCACCATCAAC
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCA-CACCATT
* * * * * ** ** * *
11807103 CAATCAT-TTACCCCAAACCTAGGATAGATTGCAGTCATC
1 CGATC-TCTTACCCCGAGCTTGGGGCAGATCACA-CCATT
* * **
11807142 CGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGC
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCA-CACCATT
* * ** *
11807181 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATC
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCACA-CCATT
* * * * * *
11807220 CAATCTTTTACCTCGAGCTTGGGGCAAATCACCATCAGT
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCA-CACCATT
* * * * **
11807259 CAATCTCTTACCCCGAGCCTGAGGTAGATTGCAGCC-TT
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCACA-CCATT
* * * * ** * * **
11807297 CCAATCTTTTACCCCAAGCCTAAGGAAGATCACCATCAGC
1 -CGATCTCTTACCCCGAGCTTGGGGCAGATCA-CACCATT
* * * ** *
11807337 CAATCTCTTACCTCGAGCCTT-GGGTAGATTGCAGCCATC
1 CGATCTCTTACCCCGAG-CTTGGGGCAGATCACA-CCATT
* * * * * **
11807376 CAATCTTTTACCCCGAACCTGGGGCAGATCACCATCAGC
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCA-CACCATT
* * ** * *
11807415 CAATCTATTACCATGAGCCT-GGGTAGATTGCA-ACCATT
1 CGATCTCTTACCCCGAGCTTGGGGCAGA-T-CACACCATT
* *
11807453 CGATCTTTTACCCCGAGCTTGGGCCAGAT--CACCATT
1 CGATCTCTTACCCCGAGCTTGGGGCAGATCACACCATT
* * *
11807489 AGGTAATCTCTTACCCCGAGCCTAGGGCAGATTGCA-ACCATT
1 -CG--ATCTCTTACCCCGAGCTTGGGGCAGA-T-CACACCATT
11807531 CGATCTCTTACCCC
1 CGATCTCTTACCCC
11807545 AATCATGGAG
Statistics
Matches: 544, Mismatches: 175, Indels: 70
0.69 0.22 0.09
Matches are distributed among these distances:
36 6 0.01
37 1 0.00
38 42 0.08
39 467 0.86
40 21 0.04
41 1 0.00
42 6 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (38 bp):
CGATCTCTTACCCCGAGCTTGGGGCAGATCACACCATT
Found at i:11806904 original size:117 final size:117
Alignment explanation
Indices: 11806754--11806975 Score: 293
Period size: 117 Copynumber: 1.9 Consensus size: 117
11806744 GAAGATTCCG
* * * * *
11806754 ATCTGTTACCCCGAGCTTGGTGCAGATTACAGCCATTCGATCTCTTA-CCCTGAGTTTGGGGTAA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTCTTATCCC-GAGCTTGAGGCAA
* * * *
11806818 ATCACCATCAGTCAATCTCTTACCCCGAGCTTAGGGCAGATCACTATCAATCA
65 ATCACCATCAGCCAATATCTTACCCCAAGCCTAGGGCAGATCACTATCAATCA
* * *
11806871 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATTCGATCTTTTATCCCGAGCTTGAGGCATA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTCTTATCCCGAGCTTGAGGCAAA
* * *
11806936 TCACTATTAGCCAATATCTTACCCCAAGCCTAGGGTAGAT
66 TCACCATCAGCCAATATCTTACCCCAAGCCTAGGGCAGAT
11806976 TGCAGCCATT
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
117 86 0.97
118 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (117 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTCTTATCCCGAGCTTGAGGCAAA
TCACCATCAGCCAATATCTTACCCCAAGCCTAGGGCAGATCACTATCAATCA
Found at i:11806997 original size:117 final size:117
Alignment explanation
Indices: 11806752--11807002 Score: 281
Period size: 117 Copynumber: 2.1 Consensus size: 117
11806742 TTGAAGATTC
* * * * *
11806752 CGATCTGTTACCCCGAGCTTGGTGCAGATTACAGCCATTCGATCTCTTACCCTGAGTTTGGGGTA
1 CGATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTCTTACCCTGAGCTTGAGGCA
* * * * *
11806817 AATCACCATCAGTCAATCTCTTACCCCGAGCTTAGGGCAGATCACTATCAAT
66 AATCACCATCAGCCAATATCTTACCCCAAGCCTAGGGCAGATCACTACCAAT
* * *
11806869 CAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATTCGATCTTTTATCCC-GAGCTTGAGGC
1 CGATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTCTTA-CCCTGAGCTTGAGGC
* * * * ** *
11806933 ATATCACTATTAGCCAATATCTTACCCCAAGCCTAGGGTAGATTGC-AGCCATT
65 AAATCACCATCAGCCAATATCTTACCCCAAGCCTAGGGCAGATCACTA-CCAAT
*
11806986 CGATCTTTTACCCCGAG
1 CGATCTCTTACCCCGAG
11807003 TCTAGGGTAG
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
116 1 0.01
117 106 0.96
118 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (117 bp):
CGATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTCTTACCCTGAGCTTGAGGCA
AATCACCATCAGCCAATATCTTACCCCAAGCCTAGGGCAGATCACTACCAAT
Found at i:11807036 original size:156 final size:154
Alignment explanation
Indices: 11806832--11807544 Score: 836
Period size: 156 Copynumber: 4.6 Consensus size: 154
11806822 CCATCAGTCA
* * ** *
11806832 ATCTCTTACCCCGAGCTTAGGGCAGATCACTATCAATCAATCTCTTACCCCGAGCTTGGGGCAGA
1 ATCTTTTACCCCGAGC-TAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
* * * * * *
11806897 TTGCAGCCATTCGATCTTTTATCCCGAGCTTGAGGCATATCACTATTAGCCAATATCTTACCCCA
65 TTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATATCTTACCCCA
11806962 AGCCTAGGGTAGATTGCAGCCATTCG
130 AGCCT-GGGTAGATTGCAGCCATTCG
* * *
11806988 ATCTTTTACCCCGAGTCTAGGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGTGGCAAA
1 ATCTTTTACCCCGAG-CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
* * * * *
11807053 TTACAGCCATCCGATCTTTTACCCCGAGTTTGGAGTAGATCACCATCAACCAATCAT-TTACCCC
65 TTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAAT-ATCTTACCCC
* * * *
11807117 AAACCTAGGATAGATTGCAGTCATCCG
129 AAGCCT-GGGTAGATTGCAGCCATTCG
*
11807144 ATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
1 ATCTTTTACCCCGAGC-TAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
* * * * * *
11807209 TTGCAGCCATCCAATCTTTTACCTCGAGCTTGGGGCAAATCACCATCAGTCAATCTCTTACCCCG
65 TTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATATCTTACCCCA
*
11807274 AGCCTGAGGTAGATTGCAGCC-TTCCA
130 AGCCTG-GGTAGATTGCAGCCATT-CG
* * * * * *
11807300 ATCTTTTACCCCAAGCCTAAGGAAGATCACCATCAGCCAATCTCTTACCTCGAGCCTTGGGTAGA
1 ATCTTTTACCCCGAG-CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
* * * * * ***
11807365 TTGCAGCCATCCAATCTTTTACCCCGAACCTGGGGCAGATCACCATCAGCCAATCTATTACCATG
65 TTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATATCTTACCCCA
*
11807430 AGCCTGGGTAGATTGCAACCATTCG
130 AGCCTGGGTAGATTGCAGCCATTCG
* * ** *
11807455 ATCTTTTACCCCGAGCTTGGGCCAGATCACCATTAGGTAATCTCTTACCCCGAGCCTAGGGCAGA
1 ATCTTTTACCCCGAGCTAGGG-CAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
* * *
11807520 TTGCAACCATTCGATCTCTTACCCC
65 TTGCAGCCATCCGATCTTTTACCCC
11807545 AATCATGGAG
Statistics
Matches: 474, Mismatches: 74, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
154 4 0.01
155 89 0.19
156 377 0.80
157 4 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (154 bp):
ATCTTTTACCCCGAGCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGAT
TGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATATCTTACCCCAA
GCCTGGGTAGATTGCAGCCATTCG
Found at i:11807558 original size:39 final size:38
Alignment explanation
Indices: 11807434--11807603 Score: 114
Period size: 39 Copynumber: 4.3 Consensus size: 38
11807424 ACCATGAGCC
* * * *
11807434 TGGGTAGATTGCAACCATTCGATCTTTTACCCCGAGCT
1 TGGGCAGATTGCAACCATTCGATCTCTTACCCCAAGCA
* * *
11807472 TGGGCCAGA-T-C-ACCATTAGGTAATCTCTTACCCCGAGCC
1 TGGG-CAGATTGCAACCATT-CG--ATCTCTTACCCCAAGCA
*
11807511 TAGGGCAGATTGCAACCATTCGATCTCTTACCCCAATCA
1 T-GGGCAGATTGCAACCATTCGATCTCTTACCCCAAGCA
* * *
11807550 TGGAGCAGATTG-AAGACATCATCTAATCTCTTACCCCAATCA
1 TGG-GCAGATTGCAA-CCAT--TC-GATCTCTTACCCCAAGCA
11807592 TGGGGCAGATTG
1 T-GGGCAGATTG
11807604 TAGTCATCCG
Statistics
Matches: 108, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
36 6 0.06
37 2 0.02
38 9 0.08
39 49 0.45
40 4 0.04
41 4 0.04
42 32 0.30
43 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (38 bp):
TGGGCAGATTGCAACCATTCGATCTCTTACCCCAAGCA
Found at i:11807559 original size:78 final size:77
Alignment explanation
Indices: 11806832--11807559 Score: 700
Period size: 78 Copynumber: 9.4 Consensus size: 77
11806822 CCATCAGTCA
* * * ** * *
11806832 ATCTCTTACCCCGAGCTTAGG-GCAGATCACTATCAATCAATCTCTTACCCCGAGCTTGGGGCAG
1 ATCTTTTACCCCAAGCTT-GGAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GGGTAG
11806896 ATTGCAGCCATTCG
64 ATTGCAGCCATTCG
* * * * * * *
11806910 ATCTTTTATCCCGAGCTT-GAGGCATATCACTATTAGCCAATATCTTACCCCAAGCCTAGGGTAG
1 ATCTTTTACCCCAAGCTTGGA-GCAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GGGTAG
11806974 ATTGCAGCCATTCG
64 ATTGCAGCCATTCG
* * * * *
11806988 ATCTTTTACCCCGAGTCTAGG-GTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGTGGCAA
1 ATCTTTTACCCCAAG-CTTGGAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTG-GGTAG
* *
11807052 ATTACAGCCATCCG
64 ATTGCAGCCATTCG
* * * * * * *
11807066 ATCTTTTACCCCGAGTTTGGAGTAGATCACCATCAACCAATCAT-TTACCCCAAACCTAGGATAG
1 ATCTTTTACCCCAAGCTTGGAGCAGATCACCATCAGCCAATC-TCTTACCCCGAGCCT-GGGTAG
* *
11807130 ATTGCAGTCATCCG
64 ATTGCAGCCATTCG
* * *
11807144 ATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGA
1 ATCTTTTACCCCAAGCTTGGAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GGGTAGA
* *
11807209 TTGCAGCCATCCA
65 TTGCAGCCATTCG
* * * * *
11807222 ATCTTTTACCTCGAGCTTGGGGCAAATCACCATCAGTCAATCTCTTACCCCGAGCCTGAGGTAGA
1 ATCTTTTACCCCAAGCTTGGAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTG-GGTAGA
*
11807287 TTGCAGCC-TTCCA
65 TTGCAGCCATT-CG
* *
11807300 ATCTTTTACCCCAAGCCTAAGGA--AGATCACCATCAGCCAATCTCTTACCTCGAGCCTTGGGTA
1 ATCTTTTACCCCAAG-CT-TGGAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCC-TGGGTA
* *
11807363 GATTGCAGCCATCCA
63 GATTGCAGCCATTCG
* * * **
11807378 ATCTTTTACCCCGAA-CCTGGGGCAGATCACCATCAGCCAATCTATTACCATGAGCCTGGGTAGA
1 ATCTTTTACCCC-AAGCTTGGAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGTAGA
*
11807442 TTGCAACCATTCG
65 TTGCAGCCATTCG
* * ** *
11807455 ATCTTTTACCCCGAGCTTGG-GCCAGATCACCATTAGGTAATCTCTTACCCCGAGCCTAGGGCAG
1 ATCTTTTACCCCAAGCTTGGAG-CAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GGGTAG
*
11807519 ATTGCAACCATTCG
64 ATTGCAGCCATTCG
* * *
11807533 ATCTCTTACCCCAATCATGGAGCAGAT
1 ATCTTTTACCCCAAGCTTGGAGCAGAT
11807560 TGAAGACATC
Statistics
Matches: 549, Mismatches: 79, Indels: 44
0.82 0.12 0.07
Matches are distributed among these distances:
76 5 0.01
77 71 0.13
78 458 0.83
79 12 0.02
80 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (77 bp):
ATCTTTTACCCCAAGCTTGGAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGTAGAT
TGCAGCCATTCG
Found at i:11808453 original size:13 final size:13
Alignment explanation
Indices: 11808437--11808466 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11808427 CAAGCCTCAC
*
11808437 CCACTTGCCTTTG
1 CCACTTGCCTCTG
11808450 CCACTTGCCTCTG
1 CCACTTGCCTCTG
11808463 CCAC
1 CCAC
11808467 CATCTGACAC
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:0.10, C:0.47, G:0.13, T:0.30
Consensus pattern (13 bp):
CCACTTGCCTCTG
Found at i:11809689 original size:30 final size:30
Alignment explanation
Indices: 11809655--11809870 Score: 217
Period size: 30 Copynumber: 7.2 Consensus size: 30
11809645 GAGATCCCCG
*
11809655 AACTTCCCAAAAATCT-CATTTTAACCCTTA
1 AACTTTCCAAAAAT-TACATTTTAACCCTTA
* *
11809685 AACTTTCCAAAAATCACA-TTTGACCCTTA
1 AACTTTCCAAAAATTACATTTTAACCCTTA
* * * *
11809714 AACTTTTCAAAAATCACATTAT-ACCCCTA
1 AACTTTCCAAAAATTACATTTTAACCCTTA
* * *
11809743 AACTTTCTAAAAATTACATTTTGACCCATA
1 AACTTTCCAAAAATTACATTTTAACCCTTA
*
11809773 AACTTTCCAAAAATTACATTTTAACCCCTA
1 AACTTTCCAAAAATTACATTTTAACCCTTA
11809803 AAC-TTCTCAAAAATTACATTTTAA-CCTCTA
1 AACTTTC-CAAAAATTACATTTTAACCCT-TA
* * * *
11809833 AACTTCTCAAAAAAAATACATTTTGACCCTCA
1 AACTT-TC-CAAAAATTACATTTTAACCCTTA
11809865 AACTTT
1 AACTTT
11809871 TTGAAACTTC
Statistics
Matches: 158, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
29 56 0.35
30 75 0.47
31 2 0.01
32 22 0.14
33 3 0.02
ACGTcount: A:0.40, C:0.25, G:0.01, T:0.33
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTAACCCTTA
Found at i:11809767 original size:59 final size:60
Alignment explanation
Indices: 11809662--11809845 Score: 232
Period size: 59 Copynumber: 3.1 Consensus size: 60
11809652 CCGAACTTCC
* * * *
11809662 CAAAAATCTCATTTTAACCCTTAAACTTTCCAAAAATCACA-TTTGACCCTTAAACTTTT
1 CAAAAATCACATTTTAACCCCTAAACTTTCTAAAAATTACATTTTGACCCTTAAACTTTT
* * *
11809721 CAAAAATCACATTAT-ACCCCTAAACTTTCTAAAAATTACATTTTGACCCATAAACTTTC
1 CAAAAATCACATTTTAACCCCTAAACTTTCTAAAAATTACATTTTGACCCTTAAACTTTT
* * *
11809780 CAAAAATTACATTTTAACCCCTAAAC-TTCTCAAAAATTACATTTT-AACCTCTAAACTTCT
1 CAAAAATCACATTTTAACCCCTAAACTTTCT-AAAAATTACATTTTGACCCT-TAAACTTTT
11809840 CAAAAA
1 CAAAAA
11809846 AAATACATTT
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
58 22 0.20
59 49 0.45
60 37 0.34
ACGTcount: A:0.41, C:0.25, G:0.01, T:0.33
Consensus pattern (60 bp):
CAAAAATCACATTTTAACCCCTAAACTTTCTAAAAATTACATTTTGACCCTTAAACTTTT
Found at i:11824422 original size:30 final size:30
Alignment explanation
Indices: 11824388--11824523 Score: 150
Period size: 30 Copynumber: 4.6 Consensus size: 30
11824378 AAAGTATCCA
* *
11824388 AAAATTACATTATGACCCCTAAACTTTTCT
1 AAAATTACATTTTGACCCCTAAACTTTTCC
* *
11824418 AAAATTACATTTTGATCCTTAAACTTTTCC
1 AAAATTACATTTTGACCCCTAAACTTTTCC
* *
11824448 -AAATTACATTTTGACCCTTAAACTTTCCC
1 AAAATTACATTTTGACCCCTAAACTTTTCC
* * * * *
11824477 AAAGTCATATTTTAACCCCCAAACTTTTCC
1 AAAATTACATTTTGACCCCTAAACTTTTCC
*
11824507 AAAATCACA-TTTGACCC
1 AAAATTACATTTTGACCC
11824524 TCGAACTTCT
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
29 34 0.38
30 55 0.62
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTTTCC
Found at i:11824455 original size:59 final size:59
Alignment explanation
Indices: 11824388--11824554 Score: 158
Period size: 59 Copynumber: 2.8 Consensus size: 59
11824378 AAAGTATCCA
* **
11824388 AAAATTACATTATGACCCCTAAACTTTTCTAAAATTACATTTTGATCCTTAAACTTTTCC
1 AAAATTACATT-TGACCCCTAAACTTTTCTAAAATTACATTTTAATCCCCAAACTTTTCC
* * * * * * *
11824448 -AAATTACATTTTGACCCTTAAACTTTCCCAAAGTCATATTTTAACCCCCAAACTTTTCC
1 AAAATTACA-TTTGACCCCTAAACTTTTCTAAAATTACATTTTAATCCCCAAACTTTTCC
* * * * *
11824507 AAAATCACATTTGA-CCCTCGAACTTCTCTAAAATTTCATTTTCATCCC
1 AAAATTACATTTGACCCCT-AAACTTTTCTAAAATTACATTTTAATCCC
11824555 GAGTTCTCTA
Statistics
Matches: 82, Mismatches: 22, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
58 3 0.04
59 70 0.85
60 9 0.11
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAATTACATTTGACCCCTAAACTTTTCTAAAATTACATTTTAATCCCCAAACTTTTCC
Found at i:11829096 original size:18 final size:19
Alignment explanation
Indices: 11829059--11829097 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11829049 TTCCAAACAC
*
11829059 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
11829078 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
11829096 AA
1 AA
11829098 AAATTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:11829117 original size:26 final size:26
Alignment explanation
Indices: 11829086--11829136 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
11829076 AAAATTCAAA
* *
11829086 ATATTTATAAAAAAATTTCAAAATTT
1 ATATTTATAAAAAAATATAAAAATTT
* *
11829112 ATATTTTTTAAAAAATATAAAAATT
1 ATATTTATAAAAAAATATAAAAATT
11829137 CTAGAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTTATAAAAAAATATAAAAATTT
Found at i:11829180 original size:20 final size:19
Alignment explanation
Indices: 11829121--11829186 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
11829111 TATATTTTTT
11829121 AAAAAATATAAAAATTCTA
1 AAAAAATATAAAAATTCTA
* *
11829140 GAAAATATATAAAAAAT-TA
1 -AAAAAATATAAAAATTCTA
*
11829159 AAAAAATTTAAAAATTTCTA
1 AAAAAATATAAAAA-TTCTA
*
11829179 AAACAATA
1 AAAAAATA
11829187 ATTCTAGAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 12 0.32
19 3 0.08
20 22 0.59
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAATATAAAAATTCTA
Found at i:11829487 original size:3 final size:3
Alignment explanation
Indices: 11829475--11829523 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
11829465 CTACTACTAC
*
11829475 TAT TAC 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
11829523 T
1 T
11829524 CTATTTTAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11836052 original size:10 final size:10
Alignment explanation
Indices: 11836028--11836059 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11836018 AAATTAAAAG
11836028 GAAAAATGGT
1 GAAAAATGGT
11836038 G--AAATGGT
1 GAAAAATGGT
11836046 GAAAAATGGT
1 GAAAAATGGT
11836056 GAAA
1 GAAA
11836060 TAGAAGACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (10 bp):
GAAAAATGGT
Found at i:11850687 original size:109 final size:109
Alignment explanation
Indices: 11850485--11850687 Score: 268
Period size: 109 Copynumber: 1.9 Consensus size: 109
11850475 TCTGTTAGCC
*
11850485 CGAGCTTGGTGCAGATTGCAGCCATTCGATCTCTTACCCCAAGTCTCGAGCAAATCACCATCAGT
1 CGAGCTTGGTGCAGATTGCAGCCATTCGATCTCTTACCCCAAGTCTCGAGCAAATCACCATCAGC
** *
11850550 CAATCTCTTACCCTGAGCTTAAGGCAGATCATTATCTCTTACCT
66 CAATCTCTTACCCCAAGCCTAAGGCAGATCATTATCTCTTACCT
* * * * * *
11850594 CGAGCTTGAG-GCAGATTGCAGCCATTCGATCTTTTATCCCGAG-CTTGAGGCATATCACTATCA
1 CGAGCTTG-GTGCAGATTGCAGCCATTCGATCTCTTACCCCAAGTCTCGA-GCAAATCACCATCA
11850657 GCCAATCTCTTACCCCAAGCCT-AGGACAGAT
64 GCCAATCTCTTACCCCAAGCCTAAGG-CAGAT
11850688 TGCAGCCATC
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
108 7 0.09
109 73 0.90
110 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (109 bp):
CGAGCTTGGTGCAGATTGCAGCCATTCGATCTCTTACCCCAAGTCTCGAGCAAATCACCATCAGC
CAATCTCTTACCCCAAGCCTAAGGCAGATCATTATCTCTTACCT
Found at i:11850710 original size:39 final size:39
Alignment explanation
Indices: 11850658--11851324 Score: 311
Period size: 39 Copynumber: 17.1 Consensus size: 39
11850648 TCACTATCAG
* * *
11850658 CCAATCTCTTACCCCAAGCCTAGGACAGATTGCAGCCAT
1 CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * *
11850697 CCGATCTTTTACCCCGAGTCTAGGGTAGA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* *
11850733 CAGTCAATCTCTTACCCCGAGCCTAGGGCAAATTGCAGCCAT
1 C---CAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * * * *
11850775 CCGATCTTTTACCCTGAG-TTTGGAGTAGA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTAGG-GCAGATTGCAGCCAT
** *
11850811 CAACCAATCTTTTACCCCGAGCCTAGGATAGATTGCAGTCAT
1 ---CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * * *
11850853 CCGATCTTTTACCCCGAGCTTGGGGCA-AAT-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * *
11850889 CAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTCAT
1 ---CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * * *
11850931 CCAATCTTTTACCTCGAGCTTGGGGCATA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * * *
11850967 CAGTCAATCTCTTACCCCGAGCCTGGGGTAGATTGCAGCCTT
1 C---CAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * * *
11851009 TCGATCTTTTACCCCAAGCCTAGGGAAGA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * * *
11851045 CAGCCAATCTCTTACCCCGAGCCTGGGGTAGATTGCAACCAT
1 ---CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
** * *
11851087 CTGATATTTTACCCCGAACCTAGGGCAGA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * ** * *
11851123 CAGCCAATCTATTGCCATGAGCCTA-GGTAGATTGCAACCAT
1 ---CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
*** * *
11851164 TTGATCTTTTACCCCGAGCTTGGGGCAGA-T-CA-CCAT
1 CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* *
11851200 CAAGCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCAT
1 C---CAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
* * * * * * *
11851242 TCGATCTCTTACCCCAATCAT-GGAGCAGATTGAAGACATCAT
1 CCAATCTTTTACCCCGAGCCTAGG-GCAGATTGCAG-C--CAT
* * * * * *
11851284 CCAATCTCTTACCCCGATCATGGGGCAGATTGTAGTCAT
1 CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
11851323 CC
1 CC
11851325 GAAGCAATGA
Statistics
Matches: 474, Mismatches: 104, Indels: 100
0.70 0.15 0.15
Matches are distributed among these distances:
36 27 0.06
37 14 0.03
38 31 0.07
39 318 0.67
40 13 0.03
41 16 0.03
42 53 0.11
43 2 0.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (39 bp):
CCAATCTTTTACCCCGAGCCTAGGGCAGATTGCAGCCAT
Found at i:11850713 original size:78 final size:78
Alignment explanation
Indices: 11850583--11851256 Score: 750
Period size: 78 Copynumber: 8.7 Consensus size: 78
11850573 GCAGATCATT
* * * * *
11850583 ATCTCTTACCTCGAG-CTTGAGGCAGATTGCAGCCATTCGATCTTTTATCCCGAGCTTGAGGCAT
1 ATCTCTTACCCCGAGCCTAG-GGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAG
*
11850647 ATCACTATCAGCCA
65 ATCACCATCAGCCA
* * * *
11850661 ATCTCTTACCCCAAGCCTAGGACAGATTGCAGCCATCCGATCTTTTACCCCGAGTCTAG-GGTAG
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAG-CTTGAGGCAG
*
11850725 ATCACCATCAGTCA
65 ATCACCATCAGCCA
* * * *
11850739 ATCTCTTACCCCGAGCCTAGGGCAAATTGCAGCCATCCGATCTTTTACCCTGAGTTTG-GAGTAG
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGAG-GCAG
*
11850803 ATCACCATCAACCA
65 ATCACCATCAGCCA
* ** * * *
11850817 ATCTTTTACCCCGAGCCTAGGATAGATTGCAGTCATCCGATCTTTTACCCCGAGCTTGGGGCAAA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
11850882 TCACCATCAGCCA
66 TCACCATCAGCCA
* * * * * *
11850895 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGTCATCCAATCTTTTACCTCGAGCTTGGGGCATA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
*
11850960 TCACCATCAGTCA
66 TCACCATCAGCCA
* * * * * * *
11850973 ATCTCTTACCCCGAGCCTGGGGTAGATTGCAGCCTTTCGATCTTTTACCCCAAGCCT-AGGGAAG
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGA-GGCAG
11851037 ATCACCATCAGCCA
65 ATCACCATCAGCCA
* * * * * * *
11851051 ATCTCTTACCCCGAGCCTGGGGTAGATTGCAACCATCTGATATTTTACCCCGAACCT-AGGGCAG
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGA-GGCAG
11851115 ATCACCATCAGCCA
65 ATCACCATCAGCCA
* * ** * * ** *
11851129 ATCTATTGCCATGAGCCTA-GGTAGATTGCAACCATTTGATCTTTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
11851193 TCACCATCAAG-CA
66 TCACCATC-AGCCA
* * *
11851206 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATTCGATCTCTTACCCC
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCC
11851257 AATCATGGAG
Statistics
Matches: 514, Mismatches: 74, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
77 67 0.13
78 440 0.86
79 7 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTGAGGCAGA
TCACCATCAGCCA
Found at i:11851304 original size:42 final size:38
Alignment explanation
Indices: 11851204--11851315 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 38
11851194 CACCATCAAG
* * * *
11851204 CAATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATT
1 CAATCTCTTACCCCGATCAT-GGGCAGATTGAAACCATC
* *
11851243 CGATCTCTTACCCCAATCATGGAGCAGATTGAAGACATCATC
1 CAATCTCTTACCCCGATCATGG-GCAGATTGAA-AC--CATC
11851285 CAATCTCTTACCCCGATCATGGGGCAGATTG
1 CAATCTCTTACCCCGATCAT-GGGCAGATTG
11851316 TAGTCATCCG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.03
39 25 0.42
40 2 0.03
42 29 0.48
43 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (38 bp):
CAATCTCTTACCCCGATCATGGGCAGATTGAAACCATC
Done.