Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 109 of 173
Found at i:33868301 original size:19 final size:19
Alignment explanation
Indices: 33868273--33868343 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
33868263 GCGCTTACGC
**
33868273 GCCAGGATGCACTTCATGA
1 GCCAGGATGCACTTTGTGA
* * *
33868292 GCCAGTATGCGCTTTGTGC
1 GCCAGGATGCACTTTGTGA
* *
33868311 GCCAGGATGCGCTTTGTGT
1 GCCAGGATGCACTTTGTGA
*
33868330 GCCAGTATGCACTT
1 GCCAGGATGCACTT
33868344 ACGTGCTAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (19 bp):
GCCAGGATGCACTTTGTGA
Found at i:33869561 original size:2 final size:2
Alignment explanation
Indices: 33869554--33869594 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
33869544 CAAAAATTGA
*
33869554 AT AT AT AT -T CAT AT AT AT AT AA AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33869595 AGATAACAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.94
3 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:33871176 original size:10 final size:11
Alignment explanation
Indices: 33871149--33871263 Score: 52
Period size: 10 Copynumber: 10.9 Consensus size: 11
33871139 TTTTAAAATC
33871149 ATAAATTTTTT
1 ATAAATTTTTT
33871160 ATAAATTTTTT
1 ATAAATTTTTT
*
33871171 A-GAATTTTTT
1 ATAAATTTTTT
*
33871181 AAAAATATAAATTTT
1 ATAAAT-T---TTTT
*
33871196 -GAAA-TTTTT
1 ATAAATTTTTT
*
33871205 ATAAATATTTT
1 ATAAATTTTTT
33871216 A-AAA--TTTT
1 ATAAATTTTTT
*
33871224 A-AAATTATTT
1 ATAAATTTTTT
*
33871234 -TGAA-TTTTT
1 ATAAATTTTTT
*
33871243 AAAAATTATTTT
1 ATAAATT-TTTT
33871255 AT-AATTTTT
1 ATAAATTTTT
33871264 GTTGAGAGAG
Statistics
Matches: 80, Mismatches: 11, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
8 8 0.10
9 8 0.10
10 25 0.31
11 25 0.31
12 7 0.09
14 3 0.04
15 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (11 bp):
ATAAATTTTTT
Found at i:33871201 original size:25 final size:28
Alignment explanation
Indices: 33871159--33871209 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
33871149 ATAAATTTTT
*
33871159 TATAAATTTTTTAGAATTTTT-TAAAAA
1 TATAAATTTTTGAGAATTTTTATAAAAA
33871186 TATAAA-TTTTGA-AATTTTTATAAA
1 TATAAATTTTTGAGAATTTTTATAAA
33871210 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 9 0.41
27 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TATAAATTTTTGAGAATTTTTATAAAAA
Found at i:33871220 original size:20 final size:20
Alignment explanation
Indices: 33871150--33871263 Score: 79
Period size: 19 Copynumber: 5.5 Consensus size: 20
33871140 TTTAAAATCA
* * *
33871150 TAAATTTTTTATAAATTTTT
1 TAAAATTTTTAAAAATATTT
*
33871170 TAGAATTTTTTAAAAATATAAATTT
1 TA-AAATTTTT-AAAA-AT--ATTT
* *
33871195 TGAAATTTTTATAAATATTT
1 TAAAATTTTTAAAAATATTT
*
33871215 TAAAA-TTTTAAAATTATTT
1 TAAAATTTTTAAAAATATTT
*
33871234 T-GAATTTTTAAAAATTATTT
1 TAAAATTTTTAAAAA-TATTT
*
33871254 TATAATTTTT
1 TAAAATTTTT
33871264 GTTGAGAGAG
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
18 2 0.03
19 21 0.28
20 16 0.21
21 15 0.20
22 5 0.07
23 5 0.07
24 7 0.09
25 4 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TAAAATTTTTAAAAATATTT
Found at i:33871249 original size:28 final size:28
Alignment explanation
Indices: 33871189--33871246 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
33871179 TTAAAAATAT
*
33871189 AAATTTTGAAATTTTTATAAATATTTTA
1 AAATTTTAAAATTTTTATAAATATTTTA
*
33871217 AAATTTTAAAATTATTT-TGAAT-TTTTA
1 AAATTTTAAAATT-TTTATAAATATTTTA
33871244 AAA
1 AAA
33871247 ATTATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 8 0.30
28 16 0.59
29 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
AAATTTTAAAATTTTTATAAATATTTTA
Found at i:33872753 original size:27 final size:27
Alignment explanation
Indices: 33872718--33872797 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
33872708 ATGGGGGTAG
* ** *
33872718 GTGGCGCCTATCTGGTAGGTGCGACTA
1 GTGGAGCCTATCTGACAGGCGCGACTA
*
33872745 GTGGAGCCTATCTGACAGGCGCGACTG
1 GTGGAGCCTATCTGACAGGCGCGACTA
*
33872772 GTGGAGCCTATCTGACAAGCGCGACT
1 GTGGAGCCTATCTGACAGGCGCGACT
33872798 GATGCTTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (27 bp):
GTGGAGCCTATCTGACAGGCGCGACTA
Found at i:33872931 original size:16 final size:16
Alignment explanation
Indices: 33872893--33872932 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
33872883 GTGAAGAAAG
*
33872893 AAAGAAAGGAAAACAA
1 AAAGAAGGGAAAACAA
33872909 AAAGAAGGGAAAACAA
1 AAAGAAGGGAAAACAA
33872925 AAAGAAGG
1 AAAGAAGG
33872933 ATAATGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (16 bp):
AAAGAAGGGAAAACAA
Found at i:33876024 original size:71 final size:73
Alignment explanation
Indices: 33875904--33876115 Score: 272
Period size: 71 Copynumber: 2.9 Consensus size: 73
33875894 AAAGTTTATT
* * *
33875904 TATTTAAATTG-AAAAAAACCCATAAAATTGATAACTGAAATAGTG-AAAAAGTCATTACATAAA
1 TATTTAAATTGCAAAGAAA--CATAAAATTGATAAATAAAAT-G-GAAAAAAGTCATTACATAAA
*
33875967 TACAAAGTTTAC
62 TACAAAGTTAAC
33875979 TATTTAAATTGC-AA-AAA-ATAAAATTGATAAATAAAATGGAAAAAAAGTCATTACATAAATAC
1 TATTTAAATTGCAAAGAAACATAAAATTGATAAATAAAATGG-AAAAAAGTCATTACATAAATAC
33876041 AAAGTTAAC
65 AAAGTTAAC
*
33876050 TATTTAAATTGCAAAAGAAACCCATAAAATTGATAAATAAAATGGAAAAAATTCATTACATAAAT
1 TATTTAAATTGC-AAAGAAA--CATAAAATTGATAAATAAAATGGAAAAAAGTCATTACATAAAT
33876115 A
63 A
33876116 TGAAATTATT
Statistics
Matches: 124, Mismatches: 4, Indels: 17
0.86 0.03 0.12
Matches are distributed among these distances:
69 1 0.01
70 1 0.01
71 59 0.48
73 2 0.02
74 6 0.05
75 13 0.10
76 20 0.16
77 22 0.18
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.27
Consensus pattern (73 bp):
TATTTAAATTGCAAAGAAACATAAAATTGATAAATAAAATGGAAAAAAGTCATTACATAAATACA
AAGTTAAC
Found at i:33878788 original size:104 final size:104
Alignment explanation
Indices: 33878394--33878755 Score: 583
Period size: 103 Copynumber: 3.5 Consensus size: 104
33878384 TTACATTATA
* * *
33878394 TAAAAATTATATTA--AAAAAATCACAAAACAC-TAAACTAAATACTAACAATTGATATAACCTA
1 TAAAAATTACATTACTAAAAAATCACAAAACACAT-AACTAAACACTAACAATTTATATAACCTA
* *
33878456 ATCATAAATTACTAACAAAATAACTATAAAATT-GTTTTA
65 ATCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
* * *
33878495 AAAAAAATACATTACTAAAAAATTACAAAACACATAACTAAACACTAACAATTTATATAACCTAA
1 TAAAAATTACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAA
33878560 TCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
66 TCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
33878599 TAAAAA-TACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAA
1 TAAAAATTACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAA
33878663 TCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
66 TCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
*
33878702 TAAAAATTACATTACTAAAAAATCACAAAAC-CCTATACTAAACACTAACAATTT
1 TAAAAATTACATTACTAAAAAATCACAAAACACATA-ACTAAACACTAACAATTT
33878756 GTAACCAAAT
Statistics
Matches: 244, Mismatches: 11, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
101 11 0.05
103 181 0.74
104 52 0.21
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (104 bp):
TAAAAATTACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAA
TCATAAATTACTAACAAAATAACTATAAAATTATTTTTT
Found at i:33879065 original size:60 final size:60
Alignment explanation
Indices: 33878989--33879107 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
33878979 AAACTAAACT
*
33878989 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* *
33879049 AAACATAATAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
33879108 TAAAAAACAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:33879508 original size:27 final size:27
Alignment explanation
Indices: 33879470--33879539 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
33879460 GGCAGTGGCG
*
33879470 CCTACTTGTCAGGCGCGACTAGTTGCA
1 CCTACCTGTCAGGCGCGACTAGTTGCA
*
33879497 CCTACCTGTCAGGCGCGACTAGTTGCG
1 CCTACCTGTCAGGCGCGACTAGTTGCA
* *
33879524 CCTATCTGACAGGCGC
1 CCTACCTGTCAGGCGC
33879540 AACCTGTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.17, C:0.33, G:0.27, T:0.23
Consensus pattern (27 bp):
CCTACCTGTCAGGCGCGACTAGTTGCA
Found at i:33879933 original size:32 final size:31
Alignment explanation
Indices: 33879895--33879975 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
33879885 GGAGTGGTAA
* *
33879895 ATATTTAAAATTTATAAAGTTTTAAAGTTAAT
1 ATATTTAAAAATTATAAAATTTT-AAGTTAAT
* *
33879927 ATATTTAAAAATGATAAAATTTTAATTTAAT
1 ATATTTAAAAATTATAAAATTTTAAGTTAAT
33879958 AT-TTTAAAAAATTATAAA
1 ATATTT-AAAAATTATAAA
33879976 TAGATAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.07
31 20 0.47
32 20 0.47
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (31 bp):
ATATTTAAAAATTATAAAATTTTAAGTTAAT
Found at i:33879969 original size:31 final size:32
Alignment explanation
Indices: 33879895--33879967 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
33879885 GGAGTGGTAA
* * *
33879895 ATATTTAAAATTTATAAAGTTTTAAAGTTAAT
1 ATATTTAAAAATGATAAAATTTTAAAGTTAAT
*
33879927 ATATTTAAAAATGATAAAATTTT-AATTTAAT
1 ATATTTAAAAATGATAAAATTTTAAAGTTAAT
33879958 AT-TTTAAAAA
1 ATATTTAAAAA
33879968 ATTATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 8 0.22
31 9 0.24
32 20 0.54
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (32 bp):
ATATTTAAAAATGATAAAATTTTAAAGTTAAT
Found at i:33888562 original size:39 final size:40
Alignment explanation
Indices: 33888511--33888597 Score: 158
Period size: 39 Copynumber: 2.2 Consensus size: 40
33888501 AATTTATTTT
*
33888511 AAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT-AA
1 AAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
33888550 AAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
33888590 AAAATAAA
1 AAAATAAA
33888598 TACATTTATT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 36 0.78
40 10 0.22
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (40 bp):
AAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:33891657 original size:17 final size:18
Alignment explanation
Indices: 33891635--33891673 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
33891625 CTTTAGATTT
*
33891635 TTTTTTAAAAATTAT-AA
1 TTTTTTAAAAAATATAAA
33891652 TTTTTTAAAAAATATAAA
1 TTTTTTAAAAAATATAAA
33891670 TTTT
1 TTTT
33891674 GGAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTAAAAAATATAAA
Found at i:33891716 original size:21 final size:21
Alignment explanation
Indices: 33891690--33891735 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
33891680 TTTATAAATA
33891690 TTTGAAAATTTAAAAAATTAT
1 TTTGAAAATTTAAAAAATTAT
* **
33891711 TTTG-AATTTTTGAAAATTAT
1 TTTGAAAATTTAAAAAATTAT
33891731 TTTGA
1 TTTGA
33891736 TTTTCCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (21 bp):
TTTGAAAATTTAAAAAATTAT
Found at i:33896009 original size:86 final size:83
Alignment explanation
Indices: 33895856--33896016 Score: 198
Period size: 83 Copynumber: 1.9 Consensus size: 83
33895846 GCACTTCAAA
* * * *
33895856 TTTCAATTTAGTCATTTTATAAATAAAAAAATATAAAATTATATATGGTAAACTTGCACTTTGGC
1 TTTCAATTCAGTCATCTTATAAATAAAAAAATATAAAATTATATATGGTAAAATTGCACTTTAGC
*
33895921 CCCCTTAAAATGAAAAGT
66 CCCCCTAAAATGAAAAGT
* * * *
33895939 TTTCAATTCAGTCCTCTTATAAGTAAAGAAAT-TATAAATTAATATATAGAGTAAAATTTCACTT
1 TTTCAATTCAGTCATCTTATAAATAAAAAAATATA-AAATT-ATATAT-G-GTAAAATTGCACTT
33896003 TAGCCCCCCTAAAA
62 TAGCCCCCCTAAAA
33896017 ATAAAAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
82 2 0.03
83 32 0.49
84 6 0.09
85 1 0.02
86 24 0.37
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (83 bp):
TTTCAATTCAGTCATCTTATAAATAAAAAAATATAAAATTATATATGGTAAAATTGCACTTTAGC
CCCCCTAAAATGAAAAGT
Found at i:33922028 original size:89 final size:89
Alignment explanation
Indices: 33921951--33922962 Score: 1510
Period size: 89 Copynumber: 11.5 Consensus size: 89
33921941 CAGGACCTGC
* ** * * *
33921951 TATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
* **
33922016 CCAGTATGGGAAGACAAGATCTAC
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
33922040 T-T-TTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGTTTTCTTCGATCTGCTTCGCC
1 TATCTTT-GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCC
*
33922103 ACCAGTATGGGAAGGCAAGATCTGT
65 ACCAGTATGGGAAGGCAAGATCTGG
** * *
33922128 TATCTTTGATCTACTTCACGCTGGTACATGAAGACAAGATCTGCTTTCTTTGATCTGTTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
* *
33922193 CCAGTATGGGAAGACAAGATCTGT
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
33922217 TATTTTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCC
1 TA-TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCC
33922282 ACCAGTATGGGAAGGCAAGATCTGG
65 ACCAGTATGGGAAGGCAAGATCTGG
* * * * **
33922307 TATCTCTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTACCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
33922372 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* *
33922396 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
33922461 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
*
33922485 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
33922550 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
33922574 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
*
33922639 CCAGAATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
33922663 TATCTCTGATCTACTTCACGCAAGTACATGAAGACAAGATTTGCTTTCTTCGATCTGCTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
*
33922728 CTAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
33922752 TATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
* *
33922817 CCAGTATGGGAAGGTAAGATCTGA
66 CCAGTATGGGAAGGCAAGATCTGG
*
33922841 TATCTCTT-ATCTACTTCACACCAGTACATGAAGACAAGA-------TC-T-G-TCTGCTTCGCC
1 TATCT-TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCC
33922895 ACCAGTATGGGAAGGCAAGATCTGG
65 ACCAGTATGGGAAGGCAAGATCTGG
* *
33922920 TATCTCTGATCTACTTCACACCAGTACATGAAGACAAGATCTG
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
33922963 TTATCTTTCA
Statistics
Matches: 853, Mismatches: 60, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.00
79 70 0.08
80 1 0.00
81 1 0.00
82 2 0.00
87 3 0.00
88 76 0.09
89 611 0.72
90 88 0.10
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (89 bp):
TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
CCAGTATGGGAAGGCAAGATCTGG
Found at i:33924237 original size:13 final size:14
Alignment explanation
Indices: 33924219--33924267 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
33924209 CCTTAGCCTC
33924219 TCCATTTT-ACTTT
1 TCCATTTTCACTTT
*
33924232 TCCATTTTTCAGTTT
1 TCCA-TTTTCACTTT
33924247 T-CATTTTCACTTT
1 TCCATTTTCACTTT
*
33924260 TTCATTTT
1 TCCATTTT
33924268 TCATCTCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 14 0.45
14 12 0.39
15 5 0.16
ACGTcount: A:0.14, C:0.20, G:0.02, T:0.63
Consensus pattern (14 bp):
TCCATTTTCACTTT
Found at i:33924247 original size:7 final size:7
Alignment explanation
Indices: 33924229--33924271 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
33924219 TCCATTTTAC
*
33924229 TTTTCCA
1 TTTTTCA
33924236 TTTTTCA
1 TTTTTCA
*
33924243 GTTTTCA
1 TTTTTCA
33924250 -TTTTCA
1 TTTTTCA
33924256 CTTTTTCA
1 -TTTTTCA
33924264 TTTTTCA
1 TTTTTCA
33924271 T
1 T
33924272 CTCATCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTTTCA
Found at i:33924251 original size:14 final size:15
Alignment explanation
Indices: 33924229--33924270 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33924219 TCCATTTTAC
33924229 TTTTCCATTTTTCA-G
1 TTTT-CATTTTTCACG
*
33924244 TTTTCA-TTTTCACT
1 TTTTCATTTTTCACG
33924258 TTTTCATTTTTCA
1 TTTTCATTTTTCA
33924271 TCTCATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 8 0.33
15 10 0.42
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTCATTTTTCACG
Found at i:33925222 original size:20 final size:20
Alignment explanation
Indices: 33925197--33925237 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
33925187 GGTTTAGCAG
33925197 AAAAAATCCAAAAGAATGAA
1 AAAAAATCCAAAAGAATGAA
**
33925217 AAAAAATCGTAAAGAATGAA
1 AAAAAATCCAAAAGAATGAA
33925237 A
1 A
33925238 GAACATTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAAAATCCAAAAGAATGAA
Found at i:33933294 original size:99 final size:101
Alignment explanation
Indices: 33933081--33933331 Score: 398
Period size: 99 Copynumber: 2.5 Consensus size: 101
33933071 TTGTATATAA
** *
33933081 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTA----AGTGATCCACCATATCTT
33933146 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
62 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
33933186 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGT-ATCCACCATATCTTTGAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGATCCACCATATCTTTGAA
33933250 ATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 ATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
**
33933285 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTG
33933332 CGAGATCCAC
Statistics
Matches: 138, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
99 73 0.53
100 23 0.17
101 2 0.01
105 40 0.29
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGATCCACCATATCTTTGAA
ATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:33935619 original size:14 final size:15
Alignment explanation
Indices: 33935580--33935616 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
33935570 AATCATATTA
*
33935580 ATTATTATTAAATAT
1 ATTATAATTAAATAT
33935595 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
33935609 A-TATAATT
1 ATTATAATT
33935617 TAAGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:33935716 original size:18 final size:17
Alignment explanation
Indices: 33935695--33935729 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33935685 TTATTATTAA
*
33935695 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
33935713 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33935730 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:33935746 original size:16 final size:15
Alignment explanation
Indices: 33935721--33935750 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33935711 ATATATAATT
33935721 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
33935736 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
33935751 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:33935758 original size:104 final size:104
Alignment explanation
Indices: 33935578--33935767 Score: 344
Period size: 104 Copynumber: 1.8 Consensus size: 104
33935568 TTAATCATAT
*
33935578 TAATTATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAATATT
1 TAATTATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATT
*
33935643 CTTATATGAATTTACTCAAATGTAAAATATAATTTAACA
66 CTTATATGAATTTACTAAAATGTAAAATATAATTTAACA
* *
33935682 TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATT
1 TAATTATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATT
33935747 CTTATATGAATTTACTAAAAT
66 CTTATATGAATTTACTAAAAT
33935768 CATAATATAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 82 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (104 bp):
TAATTATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATT
CTTATATGAATTTACTAAAATGTAAAATATAATTTAACA
Found at i:33935801 original size:104 final size:104
Alignment explanation
Indices: 33935582--33935806 Score: 296
Period size: 104 Copynumber: 2.2 Consensus size: 104
33935572 TCATATTAAT
* *
33935582 TATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAATATTCTTA
1 TATTATAAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATTCTTA
* * * *
33935647 TATGAATTTACTCAAATGTAAAATATAATTTAACATAAT
66 TATGAATTTACTAAAATGCAAAATATAATATAACATAAA
* * *
33935686 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATTCTTA
1 TATTATAAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATTCTTA
* *
33935751 TATGAATTTACTAAAAT-CATAATAT-ATGATAATATATAA
66 TATGAATTTACTAAAATGCAAAATATAAT-ATAACATA-AA
33935790 T-TTACTAAAATA-ATTAT
1 TATTA-TAAAATATATTAT
33935807 CACTAATAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
102 2 0.02
103 19 0.18
104 86 0.80
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (104 bp):
TATTATAAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATTCTTA
TATGAATTTACTAAAATGCAAAATATAATATAACATAAA
Found at i:33936031 original size:91 final size:91
Alignment explanation
Indices: 33935810--33936056 Score: 417
Period size: 89 Copynumber: 2.7 Consensus size: 91
33935800 TAATTATCAC
* *
33935810 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
33935875 AATATATAATTTCATAAAATTCGTGA
66 AATATATAATTTCATAAAATTCGTGA
*
33935901 T--TAAATTTTCTTGTATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
33935964 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCGTGA
* *
33935990 TAATAAATTTTCTTATATGAATATATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
33936055 AA
66 AA
33936057 AATGTTCTTA
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
89 84 0.58
91 61 0.42
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCGTGA
Found at i:33936052 original size:17 final size:15
Alignment explanation
Indices: 33936021--33936059 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
33936011 TATATACAAT
33936021 TTAAAATAATTAATA
1 TTAAAATAATTAATA
33936036 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
33936053 ATAAAAT
1 TTAAAAT
33936060 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:33948262 original size:38 final size:38
Alignment explanation
Indices: 33948220--33948296 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
33948210 AGTTAGGTTT
33948220 TGGGGTGACATTGCTTGATATGGTCACGGGTCGAAGTC
1 TGGGGTGACATTGCTTGATATGGTCACGGGTCGAAGTC
*
33948258 TGGGGTGACATTGCTTGATATGGTCACGGGTTGAAGTC
1 TGGGGTGACATTGCTTGATATGGTCACGGGTCGAAGTC
33948296 T
1 T
33948297 AAGTAGAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.31
Consensus pattern (38 bp):
TGGGGTGACATTGCTTGATATGGTCACGGGTCGAAGTC
Found at i:33950162 original size:7 final size:7
Alignment explanation
Indices: 33950111--33950174 Score: 51
Period size: 7 Copynumber: 8.6 Consensus size: 7
33950101 AGTTAAAAAA
33950111 TATATAT
1 TATATAT
33950118 TA-ATAT
1 TATATAT
33950124 TATAATAT
1 TAT-ATAT
*
33950132 TATATCT
1 TATATAT
33950139 TA-ATTAT
1 TATA-TAT
33950146 TAAGTATAT
1 T-A-TATAT
33950155 ATATTATAT
1 -TA-TATAT
33950164 TATATAT
1 TATATAT
33950171 TATA
1 TATA
33950175 ATAAGTAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
6 7 0.15
7 19 0.40
8 10 0.21
9 9 0.19
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:33950171 original size:25 final size:27
Alignment explanation
Indices: 33950111--33950172 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
33950101 AGTTAAAAAA
33950111 TATATATTAATATTATAATATTATATC
1 TATATATTAATATTATAATATTATATC
33950138 T-TAATTATTAAGTA-TAT-ATATTATAT-
1 TAT-A-TATTAA-TATTATAATATTATATC
33950164 TATATATTA
1 TATATATTA
33950173 TAATAAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
25 5 0.16
26 3 0.10
27 12 0.39
28 9 0.29
29 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TATATATTAATATTATAATATTATATC
Found at i:33950187 original size:30 final size:32
Alignment explanation
Indices: 33950119--33950187 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
33950109 AATATATATT
* *
33950119 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
33950152 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
33950182 AATATA
1 AATATA
33950188 ATAAAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:33950912 original size:24 final size:24
Alignment explanation
Indices: 33950885--33950931 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33950875 ATTGAAATGG
33950885 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
33950909 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
33950932 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:33951209 original size:40 final size:40
Alignment explanation
Indices: 33951089--33951226 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 40
33951079 ACTTCGAGTC
* * *
33951089 GATGAGACATTGGGTGTCAATTTACTACTTC-AGATTAAT-T
1 GATGAGACACTGGATGTCAATTTATTACTTCGA-ATT-ATCT
* * * ** *
33951129 CGATGAGGCACTGGGTGCCAA--T-TTACTTCGGTTTAGCT
1 -GATGAGACACTGGATGTCAATTTATTACTTCGAATTATCT
33951167 GATGAGACACTGGATGTCAATTTATTACTTCGAATTATCT
1 GATGAGACACTGGATGTCAATTTATTACTTCGAATTATCT
* * *
33951207 GATGAGGCATTAGATGTCAA
1 GATGAGACACTGGATGTCAA
33951227 ACTGGTGTGT
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
37 18 0.24
38 9 0.12
39 2 0.03
40 30 0.39
41 17 0.22
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (40 bp):
GATGAGACACTGGATGTCAATTTATTACTTCGAATTATCT
Found at i:33953470 original size:28 final size:26
Alignment explanation
Indices: 33953437--33953491 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 26
33953427 ATTGTTTGCG
33953437 TATTAAT-TTTATTTATTTATACTATAAT
1 TATTAATATTTATTT-TTTAT--TATAAT
33953465 TATTAATATTTATTTTTTATTATAAT
1 TATTAATATTTATTTTTTATTATAAT
33953491 T
1 T
33953492 TTTTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 7 0.27
28 12 0.46
29 7 0.27
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTAATATTTATTTTTTATTATAAT
Found at i:33957439 original size:21 final size:21
Alignment explanation
Indices: 33957413--33957454 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
33957403 ACGGGATAGG
*
33957413 TGACGTGACCCGTTAACTAGC
1 TGACGTGACCAGTTAACTAGC
33957434 TGACGTGACCAGTTAACTAGC
1 TGACGTGACCAGTTAACTAGC
33957455 CACGTTGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (21 bp):
TGACGTGACCAGTTAACTAGC
Found at i:33960381 original size:21 final size:21
Alignment explanation
Indices: 33960357--33960398 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
33960347 TTGGGTGGAC
*
33960357 CAGCTCTTTTGAGCTTCTGTT
1 CAGCTCTTATGAGCTTCTGTT
33960378 CAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTATGAGCTTCTGTT
33960399 GGTGTGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (21 bp):
CAGCTCTTATGAGCTTCTGTT
Found at i:33962595 original size:32 final size:32
Alignment explanation
Indices: 33962537--33962616 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
33962527 TGTCAATCAT
* **
33962537 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAAAATCCAACAAATTTAAAACATAATAAA
* * *
33962569 TT-AAACATCTAACAAATTTAAGACATAATAAT
1 TTCAAA-ATCCAACAAATTTAAAACATAATAAA
33962601 TTCAAAATCCAACAAA
1 TTCAAAATCCAACAAA
33962617 CTAATTGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 2 0.05
32 34 0.87
33 3 0.08
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.26
Consensus pattern (32 bp):
TTCAAAATCCAACAAATTTAAAACATAATAAA
Found at i:33962791 original size:45 final size:45
Alignment explanation
Indices: 33962724--33962817 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
33962714 CTAATATTTC
*
33962724 TAGCCATATAATCAGTCTACATAGTTTGTGCAATTTCCTCTCTCT
1 TAGCCATATAATCAGTCCACATAGTTTGTGCAATTTCCTCTCTCT
* *
33962769 TAGCCATATAATCAGTCCACATAGTTTGTGTAATTTTCTCTCTCT
1 TAGCCATATAATCAGTCCACATAGTTTGTGCAATTTCCTCTCTCT
33962814 TAGC
1 TAGC
33962818 AGACCATTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.40
Consensus pattern (45 bp):
TAGCCATATAATCAGTCCACATAGTTTGTGCAATTTCCTCTCTCT
Found at i:33964113 original size:21 final size:21
Alignment explanation
Indices: 33964088--33964131 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
33964078 CACACAAAAA
*
33964088 ATTACAAATTAAT-ATGCAATT
1 ATTACAAATCAATGA-GCAATT
33964109 ATTACAAATCAATGAGCAATT
1 ATTACAAATCAATGAGCAATT
33964130 AT
1 AT
33964132 AAGATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (21 bp):
ATTACAAATCAATGAGCAATT
Found at i:33965542 original size:28 final size:28
Alignment explanation
Indices: 33965481--33965534 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
33965471 GGACAGAGAG
*
33965481 GAAGGAGAATGACTGCTATGAAGAGAAT
1 GAAGGAGAACGACTGCTATGAAGAGAAT
*
33965509 GAAGGAGAACGACTGCTATGATGAGA
1 GAAGGAGAACGACTGCTATGAAGAGA
33965535 GTGGAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.33, T:0.17
Consensus pattern (28 bp):
GAAGGAGAACGACTGCTATGAAGAGAAT
Found at i:33972548 original size:31 final size:31
Alignment explanation
Indices: 33972490--33972548 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
33972480 GGTGTAATTA
* * *
33972490 TATATATGAAACTTTGATTGTGGTTCAAATG
1 TATACATGAAACTTTAATTGTGATTCAAATG
* *
33972521 TATACATGCAACTTTAATTTTGATTCAA
1 TATACATGAAACTTTAATTGTGATTCAA
33972549 TCATACACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (31 bp):
TATACATGAAACTTTAATTGTGATTCAAATG
Found at i:33991282 original size:39 final size:39
Alignment explanation
Indices: 33991239--33991318 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
33991229 TGAGTTAGTC
33991239 AAATTATTTAAGTCAATTCGAATAAGTAATTCGAGTTTG
1 AAATTATTTAAGTCAATTCGAATAAGTAATTCGAGTTTG
*
33991278 AAATTATTTGAGTCAATTCGAATAAGTAATTCGAGTTTG
1 AAATTATTTAAGTCAATTCGAATAAGTAATTCGAGTTTG
33991317 AA
1 AA
33991319 TCGGGTTGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (39 bp):
AAATTATTTAAGTCAATTCGAATAAGTAATTCGAGTTTG
Found at i:33991443 original size:20 final size:20
Alignment explanation
Indices: 33991411--33991493 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
33991401 AACAAAAATA
*
33991411 AAAAAATT-CAAATAATTTT
1 AAAAAATTAAAAATAATTTT
* **
33991430 AAAAAATTCAAAATGTTTTT
1 AAAAAATTAAAAATAATTTT
*
33991450 CAAAAATTAAAAATAATTTT
1 AAAAAATTAAAAATAATTTT
*
33991470 -TAAAATTAAAAAT-ATTTAT
1 AAAAAATTAAAAATAATTT-T
33991489 AAAAA
1 AAAAA
33991494 TTCCAACATT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
18 4 0.08
19 21 0.40
20 27 0.52
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAAAATTAAAAATAATTTT
Found at i:33991455 original size:39 final size:37
Alignment explanation
Indices: 33991412--33991496 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 37
33991402 ACAAAAATAA
* * *
33991412 AAAAATTCAAATAATTTTAAAAAATTCAAAATGTTTTT
1 AAAAATTCAAATAATTTT-AAAAATTAAAAATATTTAT
* *
33991450 CAAAAATTAAAAATAATTTTTAAAATTAAAAATATTTAT
1 -AAAAATT-CAAATAATTTTAAAAATTAAAAATATTTAT
33991489 AAAAATTC
1 AAAAATTC
33991497 CAACATTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 7 0.18
39 22 0.56
40 10 0.26
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (37 bp):
AAAAATTCAAATAATTTTAAAAATTAAAAATATTTAT
Found at i:33991528 original size:10 final size:10
Alignment explanation
Indices: 33991515--33991549 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
33991505 ATATATTTTT
33991515 AAAAATTCTA
1 AAAAATTCTA
*
33991525 AAAAATTCAA
1 AAAAATTCTA
33991535 AAAAATTTCTA
1 AAAAA-TTCTA
33991546 AAAA
1 AAAA
33991550 TATATAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:33992486 original size:27 final size:28
Alignment explanation
Indices: 33992452--33992520 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
33992442 GGAGGGGTTG
* *
33992452 CCACAGGCGGCACCAG-TGGTGCCAGTG
1 CCACAGGCGGCACCAGATGGTGCCACTA
* * *
33992479 GCAGAGGCGACACC-GATGGTGCCACTA
1 CCACAGGCGGCACCAGATGGTGCCACTA
33992506 CCACAGGCGGCACCA
1 CCACAGGCGGCACCA
33992521 CTCCGCTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.23, C:0.35, G:0.33, T:0.09
Consensus pattern (28 bp):
CCACAGGCGGCACCAGATGGTGCCACTA
Found at i:33992601 original size:34 final size:33
Alignment explanation
Indices: 33992562--33992706 Score: 118
Period size: 34 Copynumber: 4.2 Consensus size: 33
33992552 GTGGGTGGAG
*
33992562 AAGAAAAGGAGAGG-GAAAGGAGAAGAAAGAAAGA
1 AAGAAAAGGAAAGGAG-AAGGAGAA-AAAGAAAGA
* *
33992596 AAGAAAAGGAAAGGAGAAGAAAGAAAAGGAAAGA
1 AAGAAAAGGAAAGGAGAAG-GAGAAAAAGAAAGA
* *
33992630 AATAAAAAGGAAAGGAGAAGAAAGAAAAAGAAAG-
1 AA-GAAAAGGAAAGGAGAAG-GAGAAAAAGAAAGA
*
33992664 GAGAAGAA-GAAGAGG-GAAGGAAGGAAAAAGAAAGA
1 AAGAA-AAGGAA-AGGAGAAGG-A-GAAAAAGAAAGA
*
33992699 AAAAAAAG
1 AAGAAAAG
33992707 AAGGTAAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
33 10 0.11
34 45 0.49
35 37 0.40
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (33 bp):
AAGAAAAGGAAAGGAGAAGGAGAAAAAGAAAGA
Found at i:33992617 original size:20 final size:20
Alignment explanation
Indices: 33992592--33992684 Score: 108
Period size: 20 Copynumber: 5.0 Consensus size: 20
33992582 AGAAGAAAGA
33992592 AAGAAAGAAAAGGAAAGGAG
1 AAGAAAGAAAAGGAAAGGAG
33992612 AAGAAAGAAAAGG-AA--AG
1 AAGAAAGAAAAGGAAAGGAG
*
33992629 AA-ATA-AAAAGGAAAGGAG
1 AAGAAAGAAAAGGAAAGGAG
*
33992647 AAGAAAGAAAAAGAAAGGAG
1 AAGAAAGAAAAGGAAAGGAG
* *
33992667 AAG-AAGAAGAGGGAAGGA
1 AAGAAAGAAAAGGAAAGGA
33992685 AGGAAAAAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.10
16 4 0.06
17 4 0.06
18 4 0.06
19 16 0.26
20 28 0.45
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (20 bp):
AAGAAAGAAAAGGAAAGGAG
Found at i:33992637 original size:15 final size:14
Alignment explanation
Indices: 33992577--33992706 Score: 58
Period size: 15 Copynumber: 9.3 Consensus size: 14
33992567 AAGGAGAGGG
*
33992577 AAAGGAGAAG-AAAG
1 AAAGGA-AAGAAAAA
*
33992591 AAA-GAAAGAAAAGG
1 AAAGGAAAGAAAA-A
*
33992605 AAAGGAGAAGAAAGA
1 AAAGGA-AAGAAAAA
33992620 AAAGGAAAGAAATAA
1 AAAGGAAAGAAA-AA
*
33992635 AAAGGAAAG---GA
1 AAAGGAAAGAAAAA
*
33992646 GAA-GAAAGAAAAA
1 AAAGGAAAGAAAAA
*
33992659 GAAAGGAGAAGAAGAA
1 -AAAGGA-AAGAAAAA
* * * *
33992675 GAGGGAAGGAAGGAA
1 AAAGGAAAGAA-AAA
33992690 AAA-GAAAGAAAAA
1 AAAGGAAAGAAAAA
33992703 AAAG
1 AAAG
33992707 AAGGTAAATT
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
10 5 0.06
11 3 0.03
12 3 0.03
13 11 0.12
14 25 0.28
15 28 0.32
16 13 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (14 bp):
AAAGGAAAGAAAAA
Found at i:33992642 original size:25 final size:24
Alignment explanation
Indices: 33992614--33992676 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
33992604 GAAAGGAGAA
33992614 GAAAGAAAAGGAAAGAAATAA-AAAG
1 GAAAGAAAA-GAAAGAAA-AAGAAAG
*
33992639 GAAAGGAGAAGAAAGAAAAAGAAAG
1 GAAA-GAAAAGAAAGAAAAAGAAAG
33992664 GAGAAGAAGAAGA
1 GA-AAGAA-AAGA
33992677 GGGAAGGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
24 2 0.06
25 20 0.62
26 10 0.31
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (24 bp):
GAAAGAAAAGAAAGAAAAAGAAAG
Found at i:33992645 original size:35 final size:34
Alignment explanation
Indices: 33992582--33992706 Score: 146
Period size: 34 Copynumber: 3.6 Consensus size: 34
33992572 GAGGGAAAGG
*
33992582 AGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAAGAA
1 AGAA-AAAGAAAGAAAAAAAAGGAAAGGAGAAGAA
*
33992617 AGAAAAGGAAAGAAATAAAAAGGAAAGGAGAAGAA
1 AGAAAAAGAAAGAAA-AAAAAGGAAAGGAGAAGAA
* * *
33992652 AGAAAAAGAAAGGAGAAGAA-GAAGAGG-GAAGGAA
1 AGAAAAAGAAAGAAAAAAAAGGAA-AGGAGAA-GAA
*
33992686 GGAAAAAGAAAGAAAAAAAAG
1 AGAAAAAGAAAGAAAAAAAAG
33992707 AAGGTAAATT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
33 6 0.08
34 36 0.47
35 34 0.45
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (34 bp):
AGAAAAAGAAAGAAAAAAAAGGAAAGGAGAAGAA
Found at i:33992692 original size:55 final size:54
Alignment explanation
Indices: 33992584--33992697 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 54
33992574 GGGAAAGGAG
* *
33992584 AAGAAA-GA-AAGAAAGAAAAGGAAAGGAGAAGAAAGAAAAGGAAAGAAATAAA
1 AAGAAAGGAGAAGAAAGAAAAAGAAAGGAGAAGAAAGAAAAGGAAAGAAAGAAA
* * *
33992636 AAGGAAAGGAGAAGAAAGAAAAAGAAAGGAGAAG-AAGAAGAGGGAAGGAAGGAAA
1 AA-GAAAGGAGAAGAAAGAAAAAGAAAGGAGAAGAAAGAA-AAGGAAAGAAAGAAA
33992691 AAGAAAG
1 AAGAAAG
33992698 AAAAAAAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
52 2 0.04
53 4 0.08
54 12 0.23
55 35 0.66
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (54 bp):
AAGAAAGGAGAAGAAAGAAAAAGAAAGGAGAAGAAAGAAAAGGAAAGAAAGAAA
Found at i:33992706 original size:9 final size:10
Alignment explanation
Indices: 33992591--33992708 Score: 60
Period size: 10 Copynumber: 11.0 Consensus size: 10
33992581 GAGAAGAAAG
33992591 AAAGAAAGAA
1 AAAGAAAGAA
* *
33992601 AAGGAAAGGA
1 AAAGAAAGAA
*
33992611 GAAGAAAGAA
1 AAAGAAAGAA
*
33992621 AAGGAAAGAA
1 AAAGAAAGAA
33992631 ATAA-AAAGGAAA
1 A-AAGAAA-G-AA
33992643 GGAGAAGAAAGAA
1 --A-AAGAAAGAA
33992656 AAAGAAAGGAGA
1 AAAGAAA-GA-A
**
33992668 AGAAGAAGAGGG
1 A-AAGAA-AGAA
* *
33992680 AAGGAAGGAA
1 AAAGAAAGAA
33992690 AAAGAAAGAA
1 AAAGAAAGAA
33992700 AAA-AAAGAA
1 AAAGAAAGAA
33992709 GGTAAATTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
9 6 0.07
10 45 0.56
11 9 0.11
12 5 0.06
13 8 0.10
14 5 0.06
15 3 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:33993364 original size:305 final size:304
Alignment explanation
Indices: 33993041--33994105 Score: 1536
Period size: 305 Copynumber: 3.5 Consensus size: 304
33993031 AATTGTATAT
*
33993041 TTAAAAAACACACTAAA-TTA-ATAAAGTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
1 TTAAAAAACACACTAAATTTATATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
* * * * *
33993104 AATTAGAAAATA-TGATATTTTCTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGTC
66 AATAAGAAAATAGT-ATATTTTTTAAAGTAATAAAATTC-GAGAAAAAAATACGAACAAAGGGCC
*
33993168 GAAGTAAGGGTTTTTTACTAAATTTAAAAAAAAGAATTAATTAATACATTTCAAACATAATGTAC
129 GAAATAAGGGTTTTTTACTAAATTTAAAAAAAAGAATTAATTAATACATTTCAAACATAATGTAC
* *
33993233 TAAAATAATGTAAAAAAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAATTCGGG
194 TAAAATAAT-TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGG
* * *
33993298 AAAAAAATATGAGCAAAGGGCCAAAATAAGGGTTTTTTTTAAATTTA
258 AAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAAATTTA
* * *
33993345 TCTAAAAAATACACTAAA-TTA-ATAAATTTAAAACATAATGTACTGAAATAATGTAAAATAATA
1 T-TAAAAAACACACTAAATTTATATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
33993408 AAATAAGAAAATAGTATACTTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCC
65 AAATAAGAAAATAGTATA-TTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCC
* *
33993473 GAAATAAGGGTTTTTTTACTAAATTT-AAAAAAAGAATTAATTAATAAATTTCAAACATAATATA
129 GAAATAAGGG-TTTTTTACTAAATTTAAAAAAAAGAATTAATTAATACATTTCAAACATAATGTA
* * * *
33993537 CTAAAATAAATTAAACTAATAAAATACTAAAATAATATATTTTTATTGAAAGTAATAAAATTTGA
193 CTAAAAT-AATTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGG
* *
33993602 GAAAAAAATACGACCAAAGGGCCGAAATAAGGATTTTTATTAAAAATTTA
257 GAAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTT-TT-AAAATTTA
* * * * *
33993652 TTTAAAAACACGCTAAATTTATTTAAATTTCAAATATAATGTACTAAAATAATTTAAAATAATAA
1 TTAAAAAACACACTAAATTTATATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
* * *
33993717 AATAATAAAATAGTATGTTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAATGGCCGA
66 AATAAGAAAATAGTATATTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGA
* * *
33993782 AATAAGGGCTTTTTACT-AATTTAAAAAAAACAGACTTAATTTATACATTTCAAACATAATGTAC
131 AATAAGGGTTTTTTACTAAATTT-AAAAAAA-AGAATTAATTAATACATTTCAAACATAATGTAC
* * *
33993846 TAAAATAAAATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGT
194 TAAAAT-AATTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGG
* * * *
33993911 AAAAATATACAAGCAAAGGGGCGAAATAAGAGTTTTTTTAAAATTTA
258 AAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAAATTTA
* *
33993958 TTTAATAAA-ACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 -TTAAAAAACACACTAAATTTATATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * *
33994022 AAATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTCG-GGAAAAAATACGAATAAAGGGCCG
65 AAATAAGAAAATAGTATATTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCG
33994086 AAATAAGGGTTTTTTACTAA
130 AAATAAGGGTTTTTTACTAA
33994106 TTTTTTTTTG
Statistics
Matches: 683, Mismatches: 64, Indels: 26
0.88 0.08 0.03
Matches are distributed among these distances:
304 1 0.00
305 272 0.40
306 159 0.23
307 80 0.12
308 171 0.25
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (304 bp):
TTAAAAAACACACTAAATTTATATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
AATAAGAAAATAGTATATTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGA
AATAAGGGTTTTTTACTAAATTTAAAAAAAAGAATTAATTAATACATTTCAAACATAATGTACTA
AAATAATTAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAA
AAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAAATTTA
Found at i:33993547 original size:26 final size:25
Alignment explanation
Indices: 33993515--33993571 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
33993505 AGAATTAATT
*
33993515 AATAAATTTCAAAC-ATAATATACTAA
1 AATAAA-TT-AAACAATAAAATACTAA
33993541 AATAAATTAAACTAATAAAATACTAA
1 AATAAATTAAAC-AATAAAATACTAA
33993567 AATAA
1 AATAA
33993572 TATATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 2 0.07
26 22 0.79
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (25 bp):
AATAAATTAAACAATAAAATACTAA
Found at i:33999216 original size:41 final size:39
Alignment explanation
Indices: 33999139--33999349 Score: 141
Period size: 39 Copynumber: 5.4 Consensus size: 39
33999129 ACTAGCACAA
*
33999139 TAACAATAATAA-TA-GTTTATACTCAAAATAATACTAAC
1 TAACAATAATAATTAGGTTT-TACTAAAAATAATACTAAC
33999177 TAACAATAATAATTAGGGTTTTACTAAAAAT-A-A-TAAC
1 TAACAATAATAATTA-GGTTTTACTAAAAATAATACTAAC
* * *** * *
33999214 TAACAATAAT-ATAATGTAAAAACTAACAATCATACTAAC
1 TAACAATAATAATTAGGT-TTTACTAAAAATAATACTAAC
***
33999253 TAA-AATAATAATTAGGGTTTTTACTAATCCTAATAACTAACC
1 TAACAATAATAATTA-GG-TTTTACTAAAAATAAT-ACTAA-C
* * * *
33999295 ATAATAATAAT-ATTAGTTTTTTACTAACAATAATACTAAG
1 -TAACAATAATAATTAG-GTTTTACTAAAAATAATACTAAC
*
33999335 TAACAATAATTATTA
1 TAACAATAATAATTA
33999350 ATAACTAAAC
Statistics
Matches: 135, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
35 2 0.01
36 11 0.08
37 15 0.11
38 20 0.15
39 22 0.16
40 22 0.16
41 15 0.11
42 15 0.11
43 7 0.05
44 6 0.04
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (39 bp):
TAACAATAATAATTAGGTTTTACTAAAAATAATACTAAC
Found at i:33999256 original size:23 final size:23
Alignment explanation
Indices: 33999211--33999257 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
33999201 TAAAAATAAT
*
33999211 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
33999234 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
33999257 A
1 A
33999258 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:33999478 original size:24 final size:26
Alignment explanation
Indices: 33999446--33999495 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
33999436 AACTAAACTA
*
33999446 ACAACAAAAAATAATAA-AA-ATAAT
1 ACAAAAAAAAATAATAACAAGATAAT
*
33999470 ACAAAAAAACATAATAACAAGATAAT
1 ACAAAAAAAAATAATAACAAGATAAT
33999496 CCATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 2 0.09
26 5 0.23
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (26 bp):
ACAAAAAAAAATAATAACAAGATAAT
Found at i:34000100 original size:31 final size:31
Alignment explanation
Indices: 34000065--34000124 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
34000055 ATTTAGTCCA
*
34000065 TATTTTTCA-ATTTTATAATTCTTAATCTTTG
1 TATTTTTCAGATTTTAAAATT-TTAATCTTTG
*
34000096 TATTTTTCAGATTTTAAAATTTTAGTCTT
1 TATTTTTCAGATTTTAAAATTTTAATCTT
34000125 GACACAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.60
Consensus pattern (31 bp):
TATTTTTCAGATTTTAAAATTTTAATCTTTG
Found at i:34000680 original size:18 final size:17
Alignment explanation
Indices: 34000657--34000692 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34000647 GCAATTAATT
* *
34000657 AATTTTATAAAATTTAA
1 AATTTTTTAAAAATTAA
34000674 AATTTTTTAAAAATTAA
1 AATTTTTTAAAAATTAA
34000691 AA
1 AA
34000693 AAAATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTTTTAAAAATTAA
Found at i:34001386 original size:23 final size:24
Alignment explanation
Indices: 34001348--34001395 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
34001338 TTCTTGATTG
* *
34001348 AATTAAAACAATTATATAAAAATA
1 AATTAAAACAAATATAGAAAAATA
*
34001372 AATT-AAACAAATATAGAAATATA
1 AATTAAAACAAATATAGAAAAATA
34001395 A
1 A
34001396 TCTTAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (24 bp):
AATTAAAACAAATATAGAAAAATA
Found at i:34002498 original size:44 final size:44
Alignment explanation
Indices: 34002403--34002498 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
34002393 AGTTTTACTA
* *
34002403 CCAATAGCTGTGGACACATAATAAAATACCGTAGATGGAATCTG
1 CCAATGGCTGTGGACACATAATAAAATACCGTAGATGAAATCTG
** * **
34002447 -CATATGGCTGTGGGTACATAGTAAAATATTGTAGATGAAATCTG
1 CCA-ATGGCTGTGGACACATAATAAAATACCGTAGATGAAATCTG
34002491 CCAATGGC
1 CCAATGGC
34002499 AATAGAAGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
43 2 0.05
44 39 0.91
45 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (44 bp):
CCAATGGCTGTGGACACATAATAAAATACCGTAGATGAAATCTG
Found at i:34004620 original size:21 final size:21
Alignment explanation
Indices: 34004594--34004635 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34004584 ATTAATATAA
34004594 TAATAC-TTGATTATATTATTT
1 TAATACTTTGATTA-ATTATTT
*
34004615 TAATACTTTTATTAATTATTT
1 TAATACTTTGATTAATTATTT
34004636 ATGACCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATACTTTGATTAATTATTT
Found at i:34006209 original size:21 final size:21
Alignment explanation
Indices: 34006185--34006227 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
34006175 TTTGAAAAGT
*
34006185 ACTAAGTCTCTTTTGAACCTA
1 ACTAAGTCTCGTTTGAACCTA
34006206 ACTAAGTCTCGTTTGAACCTA
1 ACTAAGTCTCGTTTGAACCTA
34006227 A
1 A
34006228 GAAATTCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (21 bp):
ACTAAGTCTCGTTTGAACCTA
Found at i:34006370 original size:25 final size:25
Alignment explanation
Indices: 34006308--34006370 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
34006298 GACACACCAC
* *
34006308 AGCTCGCAAGAGCATCCCATTATTT
1 AGCTCGAAAGAGCATCCCATTATAT
** *
34006333 AGCTCTTATGAGCATCCCATTATAT
1 AGCTCGAAAGAGCATCCCATTATAT
*
34006358 GGCTCGAAAGAGC
1 AGCTCGAAAGAGC
34006371 TTCCTGATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (25 bp):
AGCTCGAAAGAGCATCCCATTATAT
Found at i:34008343 original size:21 final size:21
Alignment explanation
Indices: 34008268--34008363 Score: 56
Period size: 21 Copynumber: 4.6 Consensus size: 21
34008258 ATCCATAAGG
* * *
34008268 GTTAAACAGAAGCTCAAAAGA
1 GTTAAACAGAAACTCATATGA
* *
34008289 GCTT-AACGGAAACCCAT-TAGA
1 G-TTAAACAGAAACTCATAT-GA
*
34008310 GTTGAAC-GAAAACTCATATGA
1 GTTAAACAG-AAACTCATATGA
*
34008331 GTTAAACAGAAACTCGTGATG-
1 GTTAAACAGAAACTCAT-ATGA
*
34008352 GCTAAACAGAAA
1 GTTAAACAGAAA
34008364 GTAAACACTA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
20 3 0.05
21 49 0.83
22 7 0.12
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.19
Consensus pattern (21 bp):
GTTAAACAGAAACTCATATGA
Found at i:34016491 original size:73 final size:73
Alignment explanation
Indices: 34016372--34016530 Score: 318
Period size: 73 Copynumber: 2.2 Consensus size: 73
34016362 CTGCAGGGGT
34016372 CACACGGCCGTGTGACTCACACGGCTAAGAGACACACCTGTGCCTCAGGCCGTGTGGACATTCAA
1 CACACGGCCGTGTGACTCACACGGCTAAGAGACACACCTGTGCCTCAGGCCGTGTGGACATTCAA
34016437 AGTAGGGA
66 AGTAGGGA
34016445 CACACGGCCGTGTGACTCACACGGCTAAGAGACACACCTGTGCCTCAGGCCGTGTGGACATTCAA
1 CACACGGCCGTGTGACTCACACGGCTAAGAGACACACCTGTGCCTCAGGCCGTGTGGACATTCAA
34016510 AGTAGGGA
66 AGTAGGGA
34016518 CACACGGCCGTGT
1 CACACGGCCGTGT
34016531 CCTAGCCTGT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 86 1.00
ACGTcount: A:0.25, C:0.30, G:0.29, T:0.16
Consensus pattern (73 bp):
CACACGGCCGTGTGACTCACACGGCTAAGAGACACACCTGTGCCTCAGGCCGTGTGGACATTCAA
AGTAGGGA
Found at i:34017415 original size:15 final size:16
Alignment explanation
Indices: 34017386--34017415 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34017376 CAAACATGCT
34017386 TTAACACATTATCAAA
1 TTAACACATTATCAAA
34017402 TTAACACA-TATCAA
1 TTAACACATTATCAA
34017416 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:34018600 original size:27 final size:27
Alignment explanation
Indices: 34018542--34018611 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
34018532 GTGTATGTAC
*
34018542 GCTCACACGAGCTATGAAAATGGGCCT
1 GCTCACACGAGCTATGAAAATGGGCAT
* * * * *
34018569 ACTCACATGAGCTGTGAATATGGGTAT
1 GCTCACACGAGCTATGAAAATGGGCAT
*
34018596 GCTCACACGTGCTATG
1 GCTCACACGAGCTATG
34018612 GGTTGAAACG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (27 bp):
GCTCACACGAGCTATGAAAATGGGCAT
Found at i:34019608 original size:20 final size:21
Alignment explanation
Indices: 34019583--34019621 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
34019573 GAGATGATAT
*
34019583 CTTTTACTTTAA-TTATTTAC
1 CTTTTAATTTAATTTATTTAC
34019603 CTTTTAATTTAATTTATTT
1 CTTTTAATTTAATTTATTT
34019622 TTAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (21 bp):
CTTTTAATTTAATTTATTTAC
Found at i:34019629 original size:15 final size:16
Alignment explanation
Indices: 34019590--34019630 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
34019580 TATCTTTTAC
34019590 TTTAATT-ATTTACCT
1 TTTAATTAATTTACCT
*
34019605 TTTAATTTAATTTA-TT
1 TTTAA-TTAATTTACCT
34019621 TTTAATTAAT
1 TTTAATTAAT
34019631 AAAACATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 8 0.35
17 5 0.22
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTAATTAATTTACCT
Found at i:34023054 original size:101 final size:102
Alignment explanation
Indices: 34022938--34023121 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
34022928 AAAGTGATGG
* *
34022938 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-AGA-A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGTACCGA-ATAGTGAT-GGTCACATGTGTAG
34023000 TACTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
64 TACTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
* *
34023039 TCACGTGTGTAGTACTATGTACAGGCTCCTACGTGTATCGAATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTGTAGTA
*
34023104 CTATGTGTAGGCTACTAT
66 CTATGTGCAGGCTACTAT
34023122 GTGAACCAGT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 37 0.49
102 34 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTACAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
Found at i:34023099 original size:51 final size:51
Alignment explanation
Indices: 34022930--34023120 Score: 187
Period size: 51 Copynumber: 3.8 Consensus size: 51
34022920 TGAAAGTGAA
* *
34022930 AGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGA-AT
* *** *
34022980 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATACGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAAT
* * * * *
34023031 AGCT--TCGATCACGTGTGTAGTACTATGTACAGGCTCCTACGTGTATCGAAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAAT
*
34023082 AGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
34023121 TGTGAACCAG
Statistics
Matches: 111, Mismatches: 23, Indels: 13
0.76 0.16 0.09
Matches are distributed among these distances:
49 4 0.04
50 37 0.33
51 68 0.61
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGAAT
Found at i:34023394 original size:37 final size:38
Alignment explanation
Indices: 34023325--34023397 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
34023315 ATGTATGGAA
* **
34023325 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
34023363 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
34023398 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:34026133 original size:16 final size:16
Alignment explanation
Indices: 34026112--34026143 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34026102 GTTTTGTTGC
*
34026112 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
34026128 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
34026144 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:34026447 original size:51 final size:51
Alignment explanation
Indices: 34026371--34026510 Score: 194
Period size: 50 Copynumber: 2.8 Consensus size: 51
34026361 CCAGTTCACA
* *
34026371 TAGTAGCCTGCACGTAGTAATACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
* * * *
34026422 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA--GTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACG
*
34026472 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
34026511 TCACTTTCAC
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
49 4 0.05
50 40 0.51
51 30 0.38
52 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
Found at i:34031759 original size:125 final size:125
Alignment explanation
Indices: 34031538--34031914 Score: 621
Period size: 125 Copynumber: 3.0 Consensus size: 125
34031528 TTAGGGATTT
* *
34031538 TAGGTCATGGAAGAAATAATTTCGAGTTAACGTTTCTGATCAAA-AGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
34031602 AGAATGCTGTTTGATAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
66 AGAATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
34031662 TAGGTCCTGGAAGAAAAAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
34031727 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AGAATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
34031787 TAGCTCATGGAAGAAATAATTTCGAGTTGATGTTTCTAAGCAAATAGTATAAAATTGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
34031852 AGAATGCTGTTTGAGAAGAATTTGTGAAAGCGCGCCCTTGTGGACGCGCTTTTGCTACAG
66 AGAATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
34031912 TAG
1 TAG
34031915 CATGTTTGGG
Statistics
Matches: 234, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
124 40 0.17
125 194 0.83
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (125 bp):
TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGAATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:34035118 original size:21 final size:21
Alignment explanation
Indices: 34035092--34035781 Score: 472
Period size: 21 Copynumber: 31.3 Consensus size: 21
34035082 ATCAAATAAA
*
34035092 TTTAAGTTAAGGGTTACGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * **
34035113 TTTAAGTTCTA-GTTTAAAGTT
1 TTTAAGTT-AAGGGTTAGGGTT
*
34035134 TTAAAGTTAAGGGTTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGGTT
*
34035156 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* * *
34035178 TTTAA-TTAAATTAGTTTAAGGTT
1 TTTAAGTT-AA--GGGTTAGGGTT
*
34035201 TTTAAGTTAAGGGTTAAGG--
1 TTTAAGTTAAGGGTTAGGGTT
*
34035220 TTTAGGGTT-AGGGTTTAGGGTT
1 TTTA-AGTTAAGGG-TTAGGGTT
* * *
34035242 TTTAA-TTAAATTAGTTTAGAGTT
1 TTTAAGTT-AA--GGGTTAGGGTT
* *
34035265 TTTAAGTTAAGGGTTTAAGATT
1 TTTAAGTTAAGGG-TTAGGGTT
*
34035287 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGG-TTAGGGTT
* *
34035310 TTTAATTTAAGGGTTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTT
**
34035331 TTTAAGTTAAGGGTTAAAGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
34035352 TTTAAGTTGAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
34035373 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
**
34035395 TTTAA-TTAAATTAGTTAGGGTT
1 TTTAAGTT-AA-GGGTTAGGGTT
34035417 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
34035439 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA--GGGTTAGGGTT
* *
34035462 TTTAGGTTTAAAGGTTTAGGGTT
1 TTTAAG-TT-AAGGGTTAGGGTT
* *
34035485 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA--GGGTTAGGGTT
34035508 TTTAAGTTAAGGGTTAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTAGGG--T----T
* *
34035535 TCTTAAATT-A-GTTTAGGGTT
1 T-TTAAGTTAAGGGTTAGGGTT
34035555 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
34035577 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
34035599 TATT--TTTAAGGGTTTAGGGTT
1 T-TTAAGTTAAGGG-TTAGGGTT
*
34035620 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
34035641 TTTAAGTTAAGAGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
34035662 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
34035684 TTTAATTTTAAGGATTTAGGGTT
1 TTTAA-GTTAAGG-GTTAGGGTT
* *
34035707 TTT-AGTTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA--GGGTTAGGGTT
34035730 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
34035752 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGG-TTAGGGTT
34035775 TTTAAGT
1 TTTAAGT
34035782 AATAAGTCAA
Statistics
Matches: 544, Mismatches: 71, Indels: 107
0.75 0.10 0.15
Matches are distributed among these distances:
19 14 0.03
20 16 0.03
21 165 0.30
22 162 0.30
23 151 0.28
24 15 0.03
25 5 0.01
26 7 0.01
27 3 0.01
28 6 0.01
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:34035173 original size:23 final size:22
Alignment explanation
Indices: 34035092--34035781 Score: 591
Period size: 22 Copynumber: 31.3 Consensus size: 22
34035082 ATCAAATAAA
*
34035092 TTTAAGTTAAGGG-TTACGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
34035113 TTTAAGTTCTA--GTTTAAAGTT
1 TTTAAGTT-AAGGGTTTAGGGTT
* *
34035134 TTAAAGTTAAGGGTTAAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
34035156 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
** *
34035178 TTTAA-TTAAATTAGTTTAAGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
*
34035201 TTTAAGTTAAGGG-TTAAGG--
1 TTTAAGTTAAGGGTTTAGGGTT
*
34035220 TTTAGGGTT-AGGGTTTAGGGTT
1 TTTA-AGTTAAGGGTTTAGGGTT
** *
34035242 TTTAA-TTAAATTAGTTTAGAGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
* *
34035265 TTTAAGTTAAGGGTTTAAGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
34035287 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
* *
34035310 TTTAATTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
34035331 TTTAAGTTAAGGG-TTAAAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
34035352 TTTAAGTTGAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
34035373 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
34035395 TTTAA-TTAA-ATTAGTTAGGGTT
1 TTTAAGTTAAGGGT--TTAGGGTT
34035417 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
34035439 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
* *
34035462 TTTAGGTTTAAAGGTTTAGGGTT
1 TTTAAG-TTAAGGGTTTAGGGTT
**
34035485 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
34035508 TTTAAGTTAAGGGTTAGGGTTTAGGGTT
1 TTTAAGTT-A-----AGGGTTTAGGGTT
* *
34035536 CTTAAATT-A--GTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
34035555 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
34035577 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
34035599 TATT--TTTAAGGGTTTAGGGTT
1 T-TTAAGTTAAGGGTTTAGGGTT
*
34035620 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
34035641 TTTAAGTTAAGAG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
34035662 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
34035684 TTTAATTTTAAGGATTTAGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
**
34035707 TTT-AGTTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTT
34035730 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
34035752 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
34035775 TTTAAGT
1 TTTAAGT
34035782 AATAAGTCAA
Statistics
Matches: 549, Mismatches: 75, Indels: 89
0.77 0.11 0.12
Matches are distributed among these distances:
19 24 0.04
20 16 0.03
21 149 0.27
22 172 0.31
23 154 0.28
24 15 0.03
25 2 0.00
28 16 0.03
29 1 0.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:34035228 original size:13 final size:13
Alignment explanation
Indices: 34035210--34035241 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34035200 TTTTAAGTTA
34035210 AGGGTTAAGGTTT
1 AGGGTTAAGGTTT
*
34035223 AGGGTTAGGGTTT
1 AGGGTTAAGGTTT
34035236 AGGGTT
1 AGGGTT
34035242 TTTAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.38
Consensus pattern (13 bp):
AGGGTTAAGGTTT
Found at i:34035267 original size:109 final size:107
Alignment explanation
Indices: 34035092--34035781 Score: 369
Period size: 108 Copynumber: 6.3 Consensus size: 107
34035082 ATCAAATAAA
* * * * *
34035092 TTTAAGTTAAGGGTTACG-GTTTTTAAGTTCTA-GTTTAAAGTTTTAAAGTTAAGGGTTAAGGGT
1 TTTAAGTTAAGGGTTA-GTG-TTTTAAGTT-AAGGGTTAAAGTTTTTAAGTTAAAGGTT-AGAGT
*
34035155 TTTTAAGTTAAGGGTTTAAGGTTTTTAATTAAATTAGTTTAAGGTT
62 TTTTAAGTTAAGGGTTTAAGGTTTTTAATTAAATTAGTTTAGGGTT
* ** *
34035201 TTTAAGTTAAGGGTTAAG-G-TTTAGGGTT-AGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGA
1 TTTAAGTTAAGGGTT-AGTGTTTTA-AGTTAAGGG-TTAAAGTTTTTAAGTT-AA--AGGTTAGA
* * **
34035262 GTTTTTAAGTTAAGGGTTTAAGATTTTTAATTTTAA-GGGTTTAGGGTT
60 GTTTTTAAGTTAAGGGTTTAAGGTTTTTAA-TTAAATTAGTTTAGGGTT
* * * *
34035310 TTTAATTTAAGGGTTAGTGTTTTTAAGTTAAGGGTTAAAGTTTTTAAGTTGAGGGTTAGGGTTTT
1 TTTAAGTTAAGGGTTAGTG-TTTTAAGTTAAGGGTTAAAGTTTTTAAGTTAAAGGTTAGAGTTTT
34035375 TAAGTTAAGGGTTTAAGGTTTTTAATTAAATTAG-TTAGGGTT
65 TAAGTTAAGGGTTTAAGGTTTTTAATTAAATTAGTTTAGGGTT
* * * ** *
34035417 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAGGTTTAAAGGTTTAG
1 TTTAAGTTAAGGG-TTAGTG-TTTTAAGTT-AA--GGGTTAAAGTTTTTAAG-TTAAAGG-TTAG
* ** * *
34035481 GGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTAGGGTT
59 AGTTTTTAAGTT-AA-GGGTTTAAGGTTTTTAA-TTAA--ATTA--GTTTAGGGTT
* * * * ** *
34035536 CTTAAATT-A-GTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTATG-GT
1 TTTAAGTTAAGGGTTAGTG-TTTTAAGTTAAGGG-TTAAAGTTTTTAAGTTAAAGG-TTA-GAGT
* * * * *
34035598 TTATT--TTTAAGGGTTTAGGGTTTTTAATTTAA--GGGTTAGGGTT
62 TT-TTAAGTTAAGGGTTTAAGGTTTTTAATTAAATTAGTTTAGGGTT
* ** * * *
34035641 TTTAAGTTAAGAGTTAAG-GTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGATTTAGGG
1 TTTAAGTTAAGGGTT-AGTG-TTTTAAGTTAAGGG-TTAAAGTTTTTAAGTTAAAGG--TTAGAG
** * **
34035705 TTTTT-AGTTAAATTAGTTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTT
61 TTTTTAAGTT-AA-GGGTTTAAGGTTTTTAA-TTAAATTAGTTTAGGGTT
* *
34035752 TTTAATTTTAAGGGTTTAGGGTTTTTAAGT
1 TTTAA-GTTAAGGG-TTAGTG-TTTTAAGT
34035782 AATAAGTCAA
Statistics
Matches: 471, Mismatches: 64, Indels: 88
0.76 0.10 0.14
Matches are distributed among these distances:
105 15 0.03
106 2 0.00
107 73 0.15
108 78 0.17
109 74 0.16
110 52 0.11
111 37 0.08
112 38 0.08
113 28 0.06
114 21 0.04
115 16 0.03
116 18 0.04
117 3 0.01
118 2 0.00
119 14 0.03
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (107 bp):
TTTAAGTTAAGGGTTAGTGTTTTAAGTTAAGGGTTAAAGTTTTTAAGTTAAAGGTTAGAGTTTTT
AAGTTAAGGGTTTAAGGTTTTTAATTAAATTAGTTTAGGGTT
Found at i:34037948 original size:11 final size:11
Alignment explanation
Indices: 34037934--34038010 Score: 79
Period size: 11 Copynumber: 6.9 Consensus size: 11
34037924 TTAAATATGG
34037934 ATTTGAGAGAA
1 ATTTGAGAGAA
*
34037945 ATTTG-GAAGGA
1 ATTTGAG-AGAA
34037956 ATTTGAGAGCAA
1 ATTTGAGAG-AA
34037968 A-TTGAGAGGAA
1 ATTTGAGA-GAA
34037979 ATTT-AGAGAA
1 ATTTGAGAGAA
*
34037989 AATTGAGAAGAA
1 ATTTGAG-AGAA
34038001 ATTTGAGAGA
1 ATTTGAGAGA
34038011 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
10 7 0.13
11 32 0.58
12 16 0.29
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:34037995 original size:33 final size:35
Alignment explanation
Indices: 34037934--34038009 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 35
34037924 TTAAATATGG
* * *
34037934 ATTTGAGA-GAAATTTGGAAGGAATTTGAG-AGCAA
1 ATTTGAGAGGAAATTTAGAAGAAAATTGAGAAG-AA
34037968 A-TTGAGAGGAAATTTAG-AGAAAATTGAGAAGAA
1 ATTTGAGAGGAAATTTAGAAGAAAATTGAGAAGAA
34038001 ATTTGAGAG
1 ATTTGAGAG
34038010 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
33 18 0.50
34 18 0.50
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGAAAATTGAGAAGAA
Found at i:34038250 original size:42 final size:42
Alignment explanation
Indices: 34038203--34038302 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
34038193 AGCAAAGCGT
*
34038203 GCTGACGTGGCCGCGACTTGCTAGTGCGTCCCCTGACATCGC
1 GCTGACGTGGCCGCGACTTGCTAGCGCGTCCCCTGACATCGC
* *
34038245 GCTGACGTGGCCACGACTTGCTGGCGCGTCCCCTGACATCGC
1 GCTGACGTGGCCGCGACTTGCTAGCGCGTCCCCTGACATCGC
*
34038287 GCTGACGTGGACGCGA
1 GCTGACGTGGCCGCGA
34038303 TTTTTCAGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.13, C:0.35, G:0.33, T:0.19
Consensus pattern (42 bp):
GCTGACGTGGCCGCGACTTGCTAGCGCGTCCCCTGACATCGC
Found at i:34045672 original size:50 final size:50
Alignment explanation
Indices: 34045568--34045755 Score: 178
Period size: 50 Copynumber: 3.6 Consensus size: 50
34045558 TAAAAAGATT
**
34045568 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATT-GC--CACCGAG---ATGAGAGGTC
* *
34045624 CCATGTAAGACCATGTCTAGGACATGGCGTTGCCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGCCACCGAGATGAGAGGTC
** * * ** * **
34045674 CCCCGTAAGACCATGTCTGGGACATGTCATAGGTACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGCCACCGAGATGAGAGGTC
** *
34045724 CCATGTAAGACCATACCTGGGATATGGCATTG
1 CCATGTAAGACCATGTCTGGGACATGGCATTG
34045756 GTAGTACAAG
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 74 0.67
53 5 0.05
55 2 0.02
56 29 0.26
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGCCACCGAGATGAGAGGTC
Found at i:34050521 original size:62 final size:59
Alignment explanation
Indices: 34050455--34050600 Score: 150
Period size: 59 Copynumber: 2.4 Consensus size: 59
34050445 CAATTTTAGT
* * * * **
34050455 CACATTGGAGCTTGAATTTTTTATTATTATCTAAACTAGGCCTTGAACTTGGTAATTATTCC
1 CACATTGGAGCTTGAA-CTTTT-TT-TTATCCAAACTAGACCCTGAACTTGACAATTATTCC
* * **
34050517 CACATTGGGGCTTGGACTTTTTTTTATCCAAGTTAGACCCTGAACTTGACAATTATTCC
1 CACATTGGAGCTTGAACTTTTTTTTATCCAAACTAGACCCTGAACTTGACAATTATTCC
*
34050576 CACATTGG-GACTTGACCTTTTTTTT
1 CACATTGGAG-CTTGAACTTTTTTTT
34050601 TGTCCAAGTT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
58 1 0.01
59 50 0.70
60 2 0.03
61 4 0.06
62 14 0.20
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (59 bp):
CACATTGGAGCTTGAACTTTTTTTTATCCAAACTAGACCCTGAACTTGACAATTATTCC
Found at i:34050571 original size:59 final size:60
Alignment explanation
Indices: 34050498--34050611 Score: 169
Period size: 59 Copynumber: 1.9 Consensus size: 60
34050488 AACTAGGCCT
** *
34050498 TGAACTTGGTAATTATTCCCACATTGGGGCTTGGA-C-TTTTTTTTATCCAAGTTAGACCC
1 TGAACTTGACAATTATTCCCACATTGGGACTT-GACCTTTTTTTTTATCCAAGTTAGACCC
*
34050557 TGAACTTGACAATTATTCCCACATTGGGACTTGACCTTTTTTTTTGTCCAAGTTA
1 TGAACTTGACAATTATTCCCACATTGGGACTTGACCTTTTTTTTTATCCAAGTTA
34050612 ATCCTTGGAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 2 0.04
59 30 0.61
60 17 0.35
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (60 bp):
TGAACTTGACAATTATTCCCACATTGGGACTTGACCTTTTTTTTTATCCAAGTTAGACCC
Found at i:34055034 original size:3 final size:3
Alignment explanation
Indices: 34055026--34055094 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
34055016 AAAATGAGGA
* * * * *
34055026 AAT AAT AAT AAT AAT AGT AGT AGT AAT AAT AAT AGT -GT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
34055072 AGT AAT AAT AAT ATT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
34055095 TAATTTAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
2 6 0.11
3 49 0.89
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:34055072 original size:13 final size:15
Alignment explanation
Indices: 34055034--34055084 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
34055024 GAAATAATAA
*
34055034 TAATAATAGTAGTAG
1 TAATAATAATAGTAG
34055049 TAATAATAATAGT-G
1 TAATAATAATAGTAG
*
34055063 TAAT-ATAATAGTAA
1 TAATAATAATAGTAG
34055077 TAATAATA
1 TAATAATA
34055085 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
TAATAATAATAGTAG
Found at i:34056474 original size:33 final size:34
Alignment explanation
Indices: 34056432--34056496 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
34056422 GGGTGTGTGA
34056432 TGGTGCTGGTGGCAGACAGCATGGGA-AGTGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGAG
34056465 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGG
34056497 GAAGAGGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.20, C:0.12, G:0.49, T:0.18
Consensus pattern (34 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGAG
Found at i:34057128 original size:45 final size:45
Alignment explanation
Indices: 34057068--34057646 Score: 128
Period size: 45 Copynumber: 12.4 Consensus size: 45
34057058 GATCTGTAAT
*
34057068 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
34057113 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAACTCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TCG-G
* *
34057163 CTTCAATCTATTCCACTGCCAAATATAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * ** **
34057208 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-TATCGG
* * ** * ** * * **
34057251 CTT-GATCTGCT-TGCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GG
* * *
34057295 CTTCAATCCATTCCACTACCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * * * *
34057340 ATTCAATGTACTCCACTG--TAGTCACATGGAGGTAAAATCTTCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAAT-ACAGGGAGAT-AGA-GTT--A---TCG-G
*
34057392 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
34057437 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TCG-G
* * *
34057487 CTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATTGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * * * *
34057532 TTTCAATGTACTCCACTG--TAGTCACATGGAGGTAAAATCTGTCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAAT-ACAGGGAGAT-AGA---GTTATC---G-G
*
34057584 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
34057629 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
34057647 TAGTCAGGGA
Statistics
Matches: 362, Mismatches: 119, Indels: 106
0.62 0.20 0.18
Matches are distributed among these distances:
41 3 0.01
42 38 0.10
43 21 0.06
44 29 0.08
45 100 0.28
46 30 0.08
47 4 0.01
48 5 0.01
49 14 0.04
50 32 0.09
51 6 0.02
52 40 0.11
53 36 0.10
54 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:34057172 original size:95 final size:94
Alignment explanation
Indices: 34057066--34057258 Score: 359
Period size: 95 Copynumber: 2.0 Consensus size: 94
34057056 AAGATCTGTA
34057066 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
34057131 TAGTCAGGGAGGTAAACTCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTT-G
*
34057161 ATCTTCAATCTATTCCACTGCCAAATATAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
34057226 TAGTCAGGGAGGTAAAATCTGCCATCTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTG
34057255 ATCT
1 ATCT
34057259 GCTTGCTGCC
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
94 5 0.05
95 91 0.95
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (94 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTG
Found at i:34057240 original size:227 final size:228
Alignment explanation
Indices: 34056980--34057487 Score: 776
Period size: 227 Copynumber: 2.2 Consensus size: 228
34056970 AGAACTACCA
* * *
34056980 GCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCGA-C-C-TGCT-CCACT
1 GCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCGCTTGCTGCCA--
* * * * * * *
34057041 ATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAG
64 AATAC--AGGAAGACAAGATCTGCAATCTTCAATCCATTCCACTACCAAATACAGGGAGATAGAG
* *
34057106 TTATCGGCTTCAATGTACTCCACTGTAGT-CAGGGAGGTAAACTCTGCCATCTTCGATCTTCAAT
127 TTATCGGATTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTTCAAT
*
34057170 CTATTCCACTGCCAAATATAGGGAGATAGAGTTATCG
192 CTATTCCACTGCCAAATACAGGGAGATAGAGTTATCG
34057207 GCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTT-GATCTGCTTGCTGCCAA
1 GCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATC-GCTTGCTGCCAA
*
34057271 ATACAGGAAGGCAAGATCTGCAATCTTCAATCCATTCCACTACCAAATACAGGGAGATAGAGTTA
65 ATACAGGAAGACAAGATCTGCAATCTTCAATCCATTCCACTACCAAATACAGGGAGATAGAGTTA
* *
34057336 TCGGATTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTTCCATCTTCGATCTTCAATCT
130 TCGGATTCAATGTACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCT
34057401 ATTCCACTGCCAAATACAGGGAGATAGAGTTATCG
194 ATTCCACTGCCAAATACAGGGAGATAGAGTTATCG
34057436 GCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATC
1 GCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATC
34057488 TTCAATCTAT
Statistics
Matches: 257, Mismatches: 16, Indels: 13
0.90 0.06 0.05
Matches are distributed among these distances:
226 2 0.01
227 125 0.49
229 119 0.46
230 8 0.03
231 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (228 bp):
GCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCGCTTGCTGCCAAA
TACAGGAAGACAAGATCTGCAATCTTCAATCCATTCCACTACCAAATACAGGGAGATAGAGTTAT
CGGATTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTAT
TCCACTGCCAAATACAGGGAGATAGAGTTATCG
Found at i:34057512 original size:95 final size:96
Alignment explanation
Indices: 34057293--34057680 Score: 627
Period size: 97 Copynumber: 4.0 Consensus size: 96
34057283 AAGATCTGCA
* * *
34057293 ATCTTCAATCCATTCCACTACCAAATACAGGGAGATAGAGTTATCGGATTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
34057358 TAGTCACATGGAGGTAAAATCTTCCATCTTCG
66 TAGT-ACAGGGAGGTAAAATCTGCCATCTTCG
34057390 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
34057455 TAGT-CAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTACAGGGAGGTAAAATCTGCCATCTTCG
* * *
34057485 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATTGGTTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* * *
34057550 TAGTCACATGGAGGTAAAATCTGTCATCTTTG
66 TAGT-ACAGGGAGGTAAAATCTGCCATCTTCG
34057582 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
34057647 TAGT-CAGGGAGGTAAAATCTTCCATCTTTG
66 TAGTACAGGGAGGTAAAATCTGCCATCTTCG
34057677 ATCT
1 ATCT
34057681 GCTTCGCTGC
Statistics
Matches: 272, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
95 117 0.43
97 155 0.57
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (96 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTACAGGGAGGTAAAATCTGCCATCTTCG
Found at i:34057527 original size:192 final size:192
Alignment explanation
Indices: 34057293--34057680 Score: 688
Period size: 192 Copynumber: 2.0 Consensus size: 192
34057283 AAGATCTGCA
*
34057293 ATCTTCAATCCATTCCACTACCAAATACAGGGAGATAGAGTTATCGGATTCAATGTACTCCACTG
1 ATCTTCAATCCATTCCACTACCAAATACAAGGAGATAGAGTTATCGGATTCAATGTACTCCACTG
34057358 TAGTCACATGGAGGTAAAATCT-TCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGG
66 TAGTCACATGGAGGTAAAATCTGT-CATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGG
34057422 AGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
130 AGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
* * * *
34057485 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATTGGTTTCAATGTACTCCACTG
1 ATCTTCAATCCATTCCACTACCAAATACAAGGAGATAGAGTTATCGGATTCAATGTACTCCACTG
*
34057550 TAGTCACATGGAGGTAAAATCTGTCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGA
66 TAGTCACATGGAGGTAAAATCTGTCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGA
* *
34057615 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTTCCATCTTTG
131 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
34057677 ATCT
1 ATCT
34057681 GCTTCGCTGC
Statistics
Matches: 187, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
192 186 0.99
193 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (192 bp):
ATCTTCAATCCATTCCACTACCAAATACAAGGAGATAGAGTTATCGGATTCAATGTACTCCACTG
TAGTCACATGGAGGTAAAATCTGTCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGA
GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:34057752 original size:44 final size:43
Alignment explanation
Indices: 34057702--34057838 Score: 113
Period size: 41 Copynumber: 3.2 Consensus size: 43
34057692 AAATACAGGA
*
34057702 AGGCAAGATCTGCTATATTCAACCTGCTCTGCTACAAACGAGAG
1 AGGCAAGAT-TGCTATCTTCAACCTGCTCTGCTACAAACGAGAG
* * * * * *
34057746 AGGCAAGGTT--TGTCTTCGATCTGCT-TCGCTGTC-AATGCAG-G
1 AGGCAAGATTGCTATCTTCAACCTGCTCT-GCT-ACAAACG-AGAG
*
34057787 AAGGCAAGATTTGCTATCTTCAACCAGCTCTGCTACAAACGAGAG
1 -AGGCAAGA-TTGCTATCTTCAACCTGCTCTGCTACAAACGAGAG
34057832 AGGCAAG
1 AGGCAAG
34057839 GTTTGTCTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
40 1 0.01
41 18 0.26
42 10 0.14
43 3 0.04
44 18 0.26
45 18 0.26
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (43 bp):
AGGCAAGATTGCTATCTTCAACCTGCTCTGCTACAAACGAGAG
Found at i:34057796 original size:86 final size:87
Alignment explanation
Indices: 34057671--34057847 Score: 293
Period size: 86 Copynumber: 2.0 Consensus size: 87
34057661 AAATCTTCCA
* *
34057671 TCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCTATATTCAACCTGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCTATATTCAACCAGCTCTGCTA
34057736 CAAACGAGAGAGGCAAGGTTTG
66 CAAACGAGAGAGGCAAGGTTTG
* * * *
34057758 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCTATATTCAACCAGCTCTGCTA
34057822 CAAACGAGAGAGGCAAGGTTTG
66 CAAACGAGAGAGGCAAGGTTTG
34057844 TCTT
1 TCTT
34057848 TGATTTTTAC
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 65 0.77
87 19 0.23
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (87 bp):
TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCTATATTCAACCAGCTCTGCTA
CAAACGAGAGAGGCAAGGTTTG
Found at i:34061983 original size:19 final size:20
Alignment explanation
Indices: 34061959--34062002 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
34061949 CGTGAAAGTC
* *
34061959 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
34061978 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
34061998 -AATGC
1 TAATGC
34062003 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:34064222 original size:3 final size:3
Alignment explanation
Indices: 34064214--34064282 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
34064204 AAAATGAGGA
* * * * *
34064214 AAT AAT AAT AAT AAT AGT AGT AGT AAT AAT AAT AGT -GT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
34064260 AGT AAT AAT AAT ATT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
34064283 TAATTTAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
2 6 0.11
3 49 0.89
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:34064260 original size:13 final size:15
Alignment explanation
Indices: 34064222--34064272 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
34064212 GAAATAATAA
*
34064222 TAATAATAGTAGTAG
1 TAATAATAATAGTAG
34064237 TAATAATAATAGT-G
1 TAATAATAATAGTAG
*
34064251 TAAT-ATAATAGTAA
1 TAATAATAATAGTAG
34064265 TAATAATA
1 TAATAATA
34064273 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
TAATAATAATAGTAG
Found at i:34065672 original size:35 final size:35
Alignment explanation
Indices: 34065627--34065695 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
34065617 GGGTGTGTGA
*
34065627 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAAACAGCATGGGAGAGTGGGAG
34065662 TGGTGCTGGTGGCAAACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAAACAGCATGGGAGAGTGGGA
34065696 AGAGGCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.49, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAAACAGCATGGGAGAGTGGGAG
Found at i:34067351 original size:17 final size:17
Alignment explanation
Indices: 34067329--34067363 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34067319 CAATTAAGTT
34067329 AATTTTAAAGTTTTTAA
1 AATTTTAAAGTTTTTAA
*
34067346 AATTTTAAATTTTTTAA
1 AATTTTAAAGTTTTTAA
34067363 A
1 A
34067364 TTATTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
AATTTTAAAGTTTTTAA
Found at i:34080969 original size:21 final size:22
Alignment explanation
Indices: 34080933--34080983 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
34080923 ACTGTTGTTG
* *
34080933 AGAGGAAAGTTGTTGCTGTAGA
1 AGAGGAAAGTTATTGCTGAAGA
34080955 AGAGG-AAGTTATTGCTGAAGA
1 AGAGGAAAGTTATTGCTGAAGA
*
34080976 AGAAGAAA
1 AGAGGAAA
34080984 TTACTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.41, C:0.04, G:0.33, T:0.22
Consensus pattern (22 bp):
AGAGGAAAGTTATTGCTGAAGA
Found at i:34081475 original size:17 final size:18
Alignment explanation
Indices: 34081439--34081473 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34081429 ATAAGCATAC
*
34081439 ATTGTCATTGCATTTTTT
1 ATTGTCATTACATTTTTT
34081457 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
34081474 ATGTTAGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (18 bp):
ATTGTCATTACATTTTTT
Found at i:34086825 original size:5 final size:5
Alignment explanation
Indices: 34086815--34086868 Score: 72
Period size: 5 Copynumber: 10.4 Consensus size: 5
34086805 ATGAAGGAAG
* *
34086815 GATAT GATAT GATAT GATAT GATAT GATAT GAGAGAT GATAT GATAA GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT --GATAT GATAT GATAT GATAT
34086867 GA
1 GA
34086869 AACGTAATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 39 0.91
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (5 bp):
GATAT
Found at i:34089370 original size:25 final size:24
Alignment explanation
Indices: 34089325--34089371 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
34089315 TTGGTTAATA
* * *
34089325 GGGAGTGATTTTAGGAGATAATGG
1 GGGAGAGATTTTAGAAAATAATGG
34089349 GGGAGAGATTATTAGAAAATAAT
1 GGGAGAGATT-TTAGAAAATAAT
34089372 TTGATTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (24 bp):
GGGAGAGATTTTAGAAAATAATGG
Found at i:34091931 original size:26 final size:26
Alignment explanation
Indices: 34091902--34091960 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
34091892 GTAAGTGATT
*
34091902 TGAAATTGATACATGCTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
* *
34091928 TGAAACTGATATATGTTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
34091954 TGAAACT
1 TGAAACT
34091961 AGTGTAGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (26 bp):
TGAAACTGATACATGCTATGATATTC
Found at i:34098735 original size:23 final size:24
Alignment explanation
Indices: 34098704--34098748 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34098694 ATATCCTCCC
*
34098704 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
34098727 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
34098749 CAAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:34101967 original size:20 final size:18
Alignment explanation
Indices: 34101942--34101978 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
34101932 ACCTAGCATG
34101942 AATTAAATTCAAACCATATT
1 AATTAAATT-AAA-CATATT
34101962 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
34101979 CAAGATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:34104478 original size:5 final size:5
Alignment explanation
Indices: 34104468--34104511 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
34104458 GGGGTAGGAC
* * *
34104468 ATGAT ATGAT ATGTT ATGTT ATGAT ATGAT ATGAT AAGAT ATGA
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGA
34104512 AATGTACTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:34105035 original size:24 final size:24
Alignment explanation
Indices: 34104986--34105035 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
34104976 TTTTCCTTTT
*
34104986 TTAGGCTTGGCCTTGCCATTATCC
1 TTAGGCTTGGCCTTGCCATTAGCC
* *
34105010 TTAGGCTTTGCTTTAGCC-TTAGCC
1 TTAGGCTTGGCCTT-GCCATTAGCC
34105034 TT
1 TT
34105036 TCCTTTGCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (24 bp):
TTAGGCTTGGCCTTGCCATTAGCC
Found at i:34105047 original size:18 final size:18
Alignment explanation
Indices: 34104985--34105041 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
34104975 TTTTTCCTTT
* * *
34104985 TTTAGGCTTGGCCTTGCC
1 TTTAGCCTTAGCCTTTCC
* * * *
34105003 ATTATCCTTAGGCTTTGC
1 TTTAGCCTTAGCCTTTCC
34105021 TTTAGCCTTAGCCTTTCC
1 TTTAGCCTTAGCCTTTCC
34105039 TTT
1 TTT
34105042 GCCCTTGTCC
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.11, C:0.26, G:0.18, T:0.46
Consensus pattern (18 bp):
TTTAGCCTTAGCCTTTCC
Found at i:34107292 original size:88 final size:88
Alignment explanation
Indices: 34107179--34107351 Score: 301
Period size: 88 Copynumber: 2.0 Consensus size: 88
34107169 ATTCTTTCCA
34107179 AAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATAT
1 AAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATAT
**
34107244 TAATAAATTTGGTAAAATATTTC
66 TAATAAATTCAGTAAAATATTTC
* * *
34107267 AAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATAT
1 AAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATAT
34107332 TAATAAATTCAGTAAAATAT
66 TAATAAATTCAGTAAAATAT
34107352 ATACAATTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (88 bp):
AAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATAT
TAATAAATTCAGTAAAATATTTC
Found at i:34108687 original size:24 final size:24
Alignment explanation
Indices: 34108646--34108693 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34108636 AACGAAAGAA
*
34108646 GGAGATGAAGACAGAGACGGGGGT
1 GGAGATGAAGACAGAGACGAGGGT
*
34108670 GGAGATGAAGA-TGAAGACGAGGGT
1 GGAGATGAAGACAG-AGACGAGGGT
34108694 CAAGTTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.35, C:0.06, G:0.48, T:0.10
Consensus pattern (24 bp):
GGAGATGAAGACAGAGACGAGGGT
Found at i:34112080 original size:16 final size:15
Alignment explanation
Indices: 34112059--34112088 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34112049 TTTCCCCTTT
34112059 AAAACCCTAAGAAATA
1 AAAACCCTAA-AAATA
34112075 AAAACCCTAAAAAT
1 AAAACCCTAAAAAT
34112089 CCTAAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.20, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAACCCTAAAAATA
Found at i:34120437 original size:15 final size:17
Alignment explanation
Indices: 34120417--34120450 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
34120407 TTTTCCTTGA
34120417 TTTTTCTTT-TG-ATTT
1 TTTTTCTTTCTGTATTT
34120432 TTTTTCTTTCTGTATTT
1 TTTTTCTTTCTGTATTT
34120449 TT
1 TT
34120451 GGCTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTCTGTATTT
Done.