Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold61
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: 1437555
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 1 of 10
Found at i:8692 original size:13 final size:13
Alignment explanation
Indices: 8674--8700 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8664 ACATTATGCT
8674 TTGTATCGATACA
1 TTGTATCGATACA
8687 TTGTATCGATACA
1 TTGTATCGATACA
8700 T
1 T
8701 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:8730 original size:20 final size:19
Alignment explanation
Indices: 8684--8740 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
8674 TTGTATCGAT
8684 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
8703 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
8722 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
8741 AGATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:12681 original size:20 final size:19
Alignment explanation
Indices: 12656--12726 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
12646 TACCAGTTTT
***
12656 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAA-TAAAC
*
12676 ATGTATCGATGCAATAAAC
1 ATGTATCGATACAATAAAC
*
12695 ATGTATCGATACAA-AGCAAT
1 ATGTATCGATACAATA--AAC
12715 ATGTATCGATAC
1 ATGTATCGATAC
12727 TTCTAGGCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.02
19 15 0.35
20 27 0.63
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATAAAC
Found at i:12739 original size:20 final size:21
Alignment explanation
Indices: 12716--12754 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
12706 CAAAGCAATA
12716 TGTATCGATAC-TTCTAGGCT
1 TGTATCGATACTTTCTAGGCT
12736 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
12755 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGCT
Found at i:15998 original size:13 final size:13
Alignment explanation
Indices: 15980--16004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15970 CATTTTATAG
15980 TGTATCGATACAA
1 TGTATCGATACAA
15993 TGTATCGATACA
1 TGTATCGATACA
16005 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:16001 original size:33 final size:34
Alignment explanation
Indices: 15959--16025 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
15949 ATTTGCCTGC
* *
15959 ATGTATCGATACATTTTA-TAGTGTATCGATACA
1 ATGTATCGATACATTTGAGTAATGTATCGATACA
15992 ATGTATCGATACATTTGAGTAATGTATCGATACA
1 ATGTATCGATACATTTGAGTAATGTATCGATACA
16026 TTATTTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 17 0.55
34 14 0.45
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (34 bp):
ATGTATCGATACATTTGAGTAATGTATCGATACA
Found at i:16072 original size:19 final size:18
Alignment explanation
Indices: 16048--16177 Score: 110
Period size: 19 Copynumber: 7.8 Consensus size: 18
16038 TAGCTTATAT
16048 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
16067 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
16080 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
16099 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
16112 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
16131 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
16144 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
16164 TGTATCGATACAAA
1 TGTATCGATACAAA
16178 TCGTTGAAAT
Statistics
Matches: 92, Mismatches: 0, Indels: 38
0.71 0.00 0.29
Matches are distributed among these distances:
13 33 0.36
14 3 0.03
16 6 0.07
18 2 0.02
19 35 0.38
20 13 0.14
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:16085 original size:13 final size:13
Alignment explanation
Indices: 16067--16155 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
16057 ACAAAACTTA
16067 TGTATCGATACAT
1 TGTATCGATACAT
16080 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
16098 ATGTATCGATACAT
1 -TGTATCGATACAT
16112 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
16130 ATGTATCGATACAT
1 -TGTATCGATACAT
16144 TGTATCGATACA
1 TGTATCGATACA
16156 ACACTTTATG
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 30 0.47
14 2 0.03
16 12 0.19
18 2 0.03
19 18 0.28
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16087 original size:32 final size:32
Alignment explanation
Indices: 16046--16175 Score: 242
Period size: 32 Copynumber: 4.0 Consensus size: 32
16036 AGTAGCTTAT
*
16046 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
16078 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
16110 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
16142 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
16175 A
1 A
16176 AATCGTTGAA
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 81 0.84
33 15 0.16
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:16254 original size:21 final size:21
Alignment explanation
Indices: 16213--16254 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16203 GTTGGGACCT
*
16213 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
16234 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
16255 AAATGTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:25113 original size:13 final size:13
Alignment explanation
Indices: 25095--25124 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25085 ACATTTTACT
25095 ATGTATCGATACA
1 ATGTATCGATACA
*
25108 ATGTATTGATACA
1 ATGTATCGATACA
25121 ATGT
1 ATGT
25125 CCCGTGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:25763 original size:18 final size:18
Alignment explanation
Indices: 25737--25778 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
25727 CAAAAGAAAA
*
25737 AAATAAATAAATTAAATT
1 AAATTAATAAATTAAATT
* *
25755 AAATTAATAAGTTTAATT
1 AAATTAATAAATTAAATT
25773 -AATTAA
1 AAATTAA
25779 AGAGATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AAATTAATAAATTAAATT
Found at i:26588 original size:13 final size:13
Alignment explanation
Indices: 26570--26596 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26560 ACATATTGCT
26570 TTGTATCGATACA
1 TTGTATCGATACA
26583 TTGTATCGATACA
1 TTGTATCGATACA
26596 T
1 T
26597 GTTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:26588 original size:33 final size:32
Alignment explanation
Indices: 26551--26614 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
26541 CATACCCAGA
26551 TGTATCGACACATATTGCT-TTGTATCGATACAT
1 TGTATCGACACATATT--TATTGTATCGATACAT
* *
26584 TGTATCGATACATGTTTATTGTATCGATACA
1 TGTATCGACACATATTTATTGTATCGATACA
26615 CACTAAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 1 0.04
32 13 0.46
33 14 0.50
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGACACATATTTATTGTATCGATACAT
Found at i:27507 original size:13 final size:13
Alignment explanation
Indices: 27489--27514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27479 TACAGCAAAT
27489 ATGTATCGATACA
1 ATGTATCGATACA
27502 ATGTATCGATACA
1 ATGTATCGATACA
27515 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:27512 original size:32 final size:33
Alignment explanation
Indices: 27471--27534 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
27461 TAGCCAAACT
*
27471 TGTATCGATACAGC-AAATA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAAATTGTATCGATACAA
27503 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
27535 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 16 0.55
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:30485 original size:78 final size:78
Alignment explanation
Indices: 30264--30641 Score: 391
Period size: 82 Copynumber: 4.7 Consensus size: 78
30254 AGCAACTAGT
** * * * * **
30264 AGCAACTCCGCGAAGGGTAGCAATGTGAAAGTAGACAACACCATGAGCAACCAGCAATAGCTTCC
1 AGCAACTCCATGAAGGGCAGCAACGTGAAAGCAGCCAACACCATGAGCAACCAGCAGCAGCTTCC
* **
30329 ACAAGCAACCGGT
66 ACGAGCAACCGAC
* * * * *
30342 AGCAACTTCACGAGTAAAGGGCAGCAATGTAAAAGCAGCCAACACCACGAGCAACCAGCAACAGC
1 AGCAAC-TC-C-A-TGAAGGGCAGCAACGTGAAAGCAGCCAACACCATGAGCAACCAGCAGCAGC
30407 TTCCACGAGCAACCGAC
62 TTCCACGAGCAACCGAC
* **
30424 AGCAACTCCATGAAGGGCAGCAACGTGCAAGCAG-CACACACCACCAGCAACCAGCAGCAGCTTC
1 AGCAACTCCATGAAGGGCAGCAACGTGAAAGCAGCCA-ACACCATGAGCAACCAGCAGCAGCTTC
* * *
30488 CATGAGCAATCGGC
65 CACGAGCAACCGAC
* * * *
30502 AGCAACTCCACGAGCAAAGGGCAGCAACATGAAAGTAGCCAACACCATGAGCAACCAGCAGCAAC
1 AGCAACTCCA--TG--AAGGGCAGCAACGTGAAAGCAGCCAACACCATGAGCAACCAGCAGCAGC
*
30567 TTCCATGAGCAACC-AGC
62 TTCCACGAGCAACCGA-C
* *
30584 AGCAACTCCATGAAGGGCAACAACGTGAAAGCAACCAACACCATGAGCAACCAGCAGC
1 AGCAACTCCATGAAGGGCAGCAACGTGAAAGCAGCCAACACCATGAGCAACCAGCAGC
30642 TCCAATGAGC
Statistics
Matches: 254, Mismatches: 35, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
77 2 0.01
78 114 0.45
79 3 0.01
80 4 0.02
81 2 0.01
82 127 0.50
83 2 0.01
ACGTcount: A:0.38, C:0.31, G:0.22, T:0.09
Consensus pattern (78 bp):
AGCAACTCCATGAAGGGCAGCAACGTGAAAGCAGCCAACACCATGAGCAACCAGCAGCAGCTTCC
ACGAGCAACCGAC
Found at i:30495 original size:23 final size:22
Alignment explanation
Indices: 30453--30518 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
30443 GCAACGTGCA
* *
30453 AGCAGCACACACCACCAGCAACC
1 AGCAGCA-ACTCCACGAGCAACC
* * *
30476 AGCAGCAGCTTCCATGAGCAATC
1 AGCAGCAAC-TCCACGAGCAACC
*
30499 GGCAGCAACTCCACGAGCAA
1 AGCAGCAACTCCACGAGCAA
30519 AGGGCAGCAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
22 11 0.32
23 23 0.68
ACGTcount: A:0.35, C:0.38, G:0.20, T:0.08
Consensus pattern (22 bp):
AGCAGCAACTCCACGAGCAACC
Found at i:30523 original size:160 final size:161
Alignment explanation
Indices: 30249--30641 Score: 497
Period size: 160 Copynumber: 2.5 Consensus size: 161
30239 GCAGCCAACA
* * ** * * *
30249 CCACGAGCAACTAGTAGCAACTCCGCGAAGGGTAGCAATGTGAAAGTAG-ACAACACCATGAGCA
1 CCACGAGCAACCAGCAGCAACTCCATGAAGGGCAGCAACGTGAAAGCAGCACAACACCATGAGCA
** * * * **
30313 ACCAGCAATAGCTTCCACAAGCAACCGGTAGCAACTTCACGAGTAAAGGGCAGCAATGTAAAAGC
66 ACCAGCAGCAGCTTCCACAAGCAACCGGCAGCAACTCCACGAGCAAAGGGCAGCAACATAAAAGC
*
30378 AGCCAACACCACGAGCAACCAGCAACAGCTT
131 AGCCAACACCACGAGCAACCAGCAACAACTT
* **
30409 CCACGAGCAACC-GACAGCAACTCCATGAAGGGCAGCAACGTGCAAGCAGCAC-ACACCACCAGC
1 CCACGAGCAACCAG-CAGCAACTCCATGAAGGGCAGCAACGTGAAAGCAGCACAACACCATGAGC
** * *
30472 AACCAGCAGCAGCTTCCATGAGCAATCGGCAGCAACTCCACGAGCAAAGGGCAGCAACATGAAAG
65 AACCAGCAGCAGCTTCCACAAGCAACCGGCAGCAACTCCACGAGCAAAGGGCAGCAACATAAAAG
* * *
30537 TAGCCAACACCATGAGCAACCAGCAGCAACTT
130 CAGCCAACACCACGAGCAACCAGCAACAACTT
* * *
30569 CCATGAGCAACCAGCAGCAACTCCATGAAGGGCAACAACGTGAAAGCAAC-CAACACCATGAGCA
1 CCACGAGCAACCAGCAGCAACTCCATGAAGGGCAGCAACGTGAAAGCAGCACAACACCATGAGCA
30633 ACCAGCAGC
66 ACCAGCAGC
30642 TCCAATGAGC
Statistics
Matches: 198, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
159 2 0.01
160 193 0.97
161 3 0.02
ACGTcount: A:0.38, C:0.31, G:0.22, T:0.09
Consensus pattern (161 bp):
CCACGAGCAACCAGCAGCAACTCCATGAAGGGCAGCAACGTGAAAGCAGCACAACACCATGAGCA
ACCAGCAGCAGCTTCCACAAGCAACCGGCAGCAACTCCACGAGCAAAGGGCAGCAACATAAAAGC
AGCCAACACCACGAGCAACCAGCAACAACTT
Found at i:30572 original size:23 final size:22
Alignment explanation
Indices: 30541--30596 Score: 94
Period size: 23 Copynumber: 2.5 Consensus size: 22
30531 TGAAAGTAGC
*
30541 CAACACCATGAGCAACCAGCAG
1 CAACTCCATGAGCAACCAGCAG
30563 CAACTTCCATGAGCAACCAGCAG
1 CAAC-TCCATGAGCAACCAGCAG
30586 CAACTCCATGA
1 CAACTCCATGA
30597 AGGGCAACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 11 0.34
23 21 0.66
ACGTcount: A:0.38, C:0.36, G:0.16, T:0.11
Consensus pattern (22 bp):
CAACTCCATGAGCAACCAGCAG
Found at i:31016 original size:98 final size:98
Alignment explanation
Indices: 30847--31045 Score: 389
Period size: 98 Copynumber: 2.0 Consensus size: 98
30837 TATATATCAG
30847 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAGCT
1 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAGCT
*
30912 TGTATATGGTGTTAGTTGCATTTTTTTTATTAT
66 TGTATATGGTGTTAGTCGCATTTTTTTTATTAT
30945 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAGCT
1 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAGCT
31010 TGTATATGGTGTTAGTCGCATTTTTTTTATTAT
66 TGTATATGGTGTTAGTCGCATTTTTTTTATTAT
31043 CAT
1 CAT
31046 TTTTTGCCTC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 100 1.00
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.49
Consensus pattern (98 bp):
CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAGCT
TGTATATGGTGTTAGTCGCATTTTTTTTATTAT
Found at i:46199 original size:182 final size:183
Alignment explanation
Indices: 45892--46245 Score: 665
Period size: 182 Copynumber: 1.9 Consensus size: 183
45882 CCCGGGGCAA
45892 ATAGGCACCTAATTGGGAAAGACCCTATGTGGTTCACAAAGTTTTCTCAAGAGGAGCATTAATCC
1 ATAGGCACCTAATTGGGAAAGACCCTATGTGGTTCACAAAGTTTTCTCAAGAGGAGCATTAATCC
*
45957 TTGCTGATATGGATGGAAAGGTCTTCCCAAATCCAGTCAATGCAGATAGTGTAAAAAAATATTAT
66 TTGCTGAAATGGATGGAAAGGTCTTCCCAAATCCAGTCAATGCAGATAGTGTAAAAAAATATTAT
46022 GCAT-AAAAAAATTAAAAAACAAAAAAATCGAATGAAAACCCAAATCGGGCGT
131 GCATAAAAAAAATTAAAAAACAAAAAAATCGAATGAAAACCCAAATCGGGCGT
* *
46074 ATAGGCACCTAATTGGGAAAGACCTTATGTGGTTCACAAAGTTTTCTCAGGAGGAGCATTAATCC
1 ATAGGCACCTAATTGGGAAAGACCCTATGTGGTTCACAAAGTTTTCTCAAGAGGAGCATTAATCC
*
46139 TTGCTGAAATGGATGGAAAGGTCTTCCCAAATCCAGTCAATGTAGATAGTGTAAAAAAATATTAT
66 TTGCTGAAATGGATGGAAAGGTCTTCCCAAATCCAGTCAATGCAGATAGTGTAAAAAAATATTAT
46204 GCATAAAAAAAATTAAAAAACAAAAAAATCGAATGAAAACCC
131 GCATAAAAAAAATTAAAAAACAAAAAAATCGAATGAAAACCC
46246 TAAAACCCAA
Statistics
Matches: 167, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
182 130 0.78
183 37 0.22
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (183 bp):
ATAGGCACCTAATTGGGAAAGACCCTATGTGGTTCACAAAGTTTTCTCAAGAGGAGCATTAATCC
TTGCTGAAATGGATGGAAAGGTCTTCCCAAATCCAGTCAATGCAGATAGTGTAAAAAAATATTAT
GCATAAAAAAAATTAAAAAACAAAAAAATCGAATGAAAACCCAAATCGGGCGT
Found at i:46595 original size:20 final size:20
Alignment explanation
Indices: 46553--46609 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
46543 AAGTACCCAG
* *
46553 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
46573 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
46593 ATGTATCAATACATTCT
1 ATGTATCGATACATTCT
46610 GTCTTTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:50784 original size:43 final size:43
Alignment explanation
Indices: 50718--51476 Score: 868
Period size: 42 Copynumber: 18.0 Consensus size: 43
50708 CATTAAACTT
* *
50718 CTGGAGACTTTCC-ATCCCTTAGTCTGCCTATCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* *
50760 CTGGAGACTTTTCTATCCCTTAGTCTGCTTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* *
50803 CTAGAGACTTTCCTATCCCTTAGTCTACCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
*
50846 CTAGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
50889 TTGGAGACTTTCCTA-CTCTCAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
50931 CTGAAGATTTTCCT-TCCCTAAGTCTGCCTGTCGGTTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
** * *
50973 C-AAAGACTTTCCTA-CCTTTAGTCTGCCTGTCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
51014 TTGGAGACTTTCCTA-CCCTCAGTCTGTCTATCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
51056 CTGGAGAC-TTCTCT-TCCCTCAATCTGTCTATCAGCTTTGACC
1 CTGGAGACTTTC-CTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
51098 CTAGAGACTTT-CTTTCCC-TATGTCT--TTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTA-GTCTGCCTGTCGGCTTTGACC
* * * * * *
51138 TTGGAGATTTTTCTA-CCCTTAGGCTGCCTGTGGGCTTTGATC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* *
51180 TTGGAGACTTTCCTATCCCTTAGTCTACCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
*
51223 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
51265 CTAGAGATTTTCCTATCCCTTAGTCTGTCTGTCGGTTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
*
51308 TTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
51351 CTAGAGACTTTCCT-TCCCTTAGTCTGCC-ATCGGTTTTGACT
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
51392 CTAGAGACTTTTCTGTCCCTCAGTCTGCCTGTCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
51435 TTGAAGACTTT-CTTTCCCTAAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
51477 TTGAAAACTG
Statistics
Matches: 614, Mismatches: 86, Indels: 34
0.84 0.12 0.05
Matches are distributed among these distances:
40 26 0.04
41 66 0.11
42 272 0.44
43 250 0.41
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.37
Consensus pattern (43 bp):
CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
Found at i:51505 original size:42 final size:41
Alignment explanation
Indices: 51413--51518 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 41
51403 TCTGTCCCTC
* * **
51413 AGTCTGCCTGTCAGCTTTGACCTTGAAGACTTTCTTTCCCTA
1 AGTCTGCCTGTCGGCTTTGACCTTGAAAACTGCCTTT-CCTA
51455 AGTCTGCCTGTCGGCTTTGACCTTGAAAACTGCCTCTT-CTAA
1 AGTCTGCCTGTCGGCTTTGACCTTGAAAACTGCCT-TTCCT-A
*
51497 AGTTTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACC
51519 CAGGAGAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.04
42 53 0.93
43 2 0.04
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.36
Consensus pattern (41 bp):
AGTCTGCCTGTCGGCTTTGACCTTGAAAACTGCCTTTCCTA
Found at i:52148 original size:31 final size:31
Alignment explanation
Indices: 52088--52153 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
52078 TGCATGCAAG
*
52088 GCAATATAGCATGCAATCATGGGAGACACAT
1 GCAATATAGCATGCAATCATGGGAGACACAA
*
52119 GCAATGTAGCATGCAATCATGGG-GAACACAA
1 GCAATATAGCATGCAATCATGGGAG-ACACAA
52150 GCAA
1 GCAA
52154 ATGGAACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (31 bp):
GCAATATAGCATGCAATCATGGGAGACACAA
Found at i:52771 original size:82 final size:81
Alignment explanation
Indices: 52574--52939 Score: 465
Period size: 82 Copynumber: 4.6 Consensus size: 81
52564 CAAACAAGAG
* * ** *
52574 AAGGGCAACAACGTGAAAGCAGCCAACACCACGAGCAACCAGTAGCAATTTCCATGAGCAACCGA
1 AAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGCAGCTTCCATGAGCAACCGG
**
52639 CTGCAACTCCAT-G--
66 CAACAACTCCATAGCA
* * ** *
52652 AAGGGTAGCAATGTGAAAGCAGCCAACACCACGAGCAACCAGCAATAGCTTCCAGGAGCAACCGG
1 AAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGCAGCTTCCATGAGCAACCGG
*
52717 CAACAAATCCATGAGCA
66 CAACAACTCCAT-AGCA
* * * * *
52734 AAGGGTAGCAACGTGAAAGCAGTCAACACCATGAGCAACCAGCAGCAGCTTCCACGAGCAACCAG
1 AAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGCAGCTTCCATGAGCAACCGG
52799 CAACAACTCCATGAGCA
66 CAACAACTCCAT-AGCA
* * * *
52816 AAGGGCAACAACGTGAAAACAGCCAACACCACGAGCAACCAACAGTAGCTTCCATGAGCAACCGG
1 AAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGCAGCTTCCATGAGCAACCGG
*
52881 CAACAACTCC--A-CG
66 CAACAACTCCATAGCA
52894 AAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGC
1 AAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGC
52940 TCCAACGAGC
Statistics
Matches: 249, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
78 107 0.43
79 1 0.00
80 1 0.00
82 140 0.56
ACGTcount: A:0.39, C:0.31, G:0.22, T:0.09
Consensus pattern (81 bp):
AAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGCAGCTTCCATGAGCAACCGG
CAACAACTCCATAGCA
Found at i:52906 original size:160 final size:158
Alignment explanation
Indices: 52568--52939 Score: 480
Period size: 160 Copynumber: 2.3 Consensus size: 158
52558 CTTGGCCAAA
* * * * *
52568 CAAGAGAAGGGCAACAACGTGAAAGCAGCCAACACCACGAGCAACCAGTAGCAATTTCCATGAGC
1 CAAGCGAAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGCAACTTCCACGAGC
** * * * * *
52633 AACCGACTGCAACTCCATGAAGGGTAGCAATGTGAAAGCAGCCAACACCACGAGCAACCAGCAAT
66 AACCGACAACAACTCCATGAAGGGCAACAACGTGAAAACAGCCAACACCACGAGCAACCAACAAT
52698 AGCTTCCAGGAGCAACCGGCAACAAATC
131 AGCTTCCAGGAGCAACCGGCAACAAATC
* * * * *
52726 CATGAGCAAAGGGTAGCAACGTGAAAGCAGTCAACACCATGAGCAACCAGCAGCAGCTTCCACGA
1 CA--AGCGAAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGCAACTTCCACGA
52791 GCAACC-AGCAACAACTCCATGAGCAAAGGGCAACAACGTGAAAACAGCCAACACCACGAGCAAC
64 GCAACCGA-CAACAACTCCAT--G--AAGGGCAACAACGTGAAAACAGCCAACACCACGAGCAAC
* * *
52855 CAACAGTAGCTTCCATGAGCAACCGGCAACAACTC
124 CAACAATAGCTTCCAGGAGCAACCGGCAACAAATC
52890 C-A-CGAAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGC
1 CAAGCGAAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGC
52940 TCCAACGAGC
Statistics
Matches: 183, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
158 2 0.01
159 1 0.01
160 111 0.61
161 1 0.01
162 1 0.01
164 67 0.37
ACGTcount: A:0.39, C:0.31, G:0.22, T:0.09
Consensus pattern (158 bp):
CAAGCGAAGGGCAGCAACGTGAAAGCAGCCAACACCACGAGCAACCAGCAGCAACTTCCACGAGC
AACCGACAACAACTCCATGAAGGGCAACAACGTGAAAACAGCCAACACCACGAGCAACCAACAAT
AGCTTCCAGGAGCAACCGGCAACAAATC
Found at i:53368 original size:110 final size:110
Alignment explanation
Indices: 53145--53359 Score: 403
Period size: 110 Copynumber: 2.0 Consensus size: 110
53135 TATATATCAG
*
53145 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTGTTAGCT
1 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTATTAGCT
*
53210 TGTATATGGTGTTAGTTGCATTTTTTTTATTATCATTTTTATAAT
66 TGTATATGGTGTTAGTTGCATTTTTTTTATCATCATTTTTATAAT
53255 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTATTAGCT
1 CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTATTAGCT
*
53320 TGTATATGGTGTTAGTTGTATTTTTTTTATCATCATTTTT
66 TGTATATGGTGTTAGTTGCATTTTTTTTATCATCATTTTT
53360 TACCTCATGA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (110 bp):
CATGTATGTTCATCATGTTTTCAAGTTTATTTAATTATGTGAAGAAGGAATGTGATTTATTAGCT
TGTATATGGTGTTAGTTGCATTTTTTTTATCATCATTTTTATAAT
Found at i:55557 original size:3 final size:3
Alignment explanation
Indices: 55549--55585 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
55539 ACGATAAAAA
*
55549 ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
55586 AGCTGACTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:62552 original size:20 final size:20
Alignment explanation
Indices: 62527--62581 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
62517 TAAAACTCAC
*
62527 ATTGTATCGATACATGAAGG
1 ATTGTATCGATACATGAAGA
**
62547 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATGAAGA
*
62567 AATGTATCGATACAT
1 ATTGTATCGATACAT
62582 TGAGCCTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:66232 original size:154 final size:154
Alignment explanation
Indices: 65921--66258 Score: 348
Period size: 154 Copynumber: 2.2 Consensus size: 154
65911 TTGAATATAC
* * * *
65921 CTTCGACGTGAAAGTATC-TAGTAACTCTACAAGACACGAAAAGATCATGAAAGGATGAACTTAT
1 CTTCGACGTGAAAGTATCTTAGTAACTCTAAAAGACACAAAAAGATCATAAAAGGATGAACCTAT
* * * * *
65985 CTTAAATATATACTTTTGGCATAAGAGCAACCTGATGACTACCTAAAACTCGGTTCTAGGAAAAA
66 CCTAAATACATACCTTTGGCATAAAAGCAACCCGATGACTACCTAAAACTCGGTTCTAGGAAAAA
* * *
66050 TTACCTAAATGCCTTGAGGTGTAT
131 TTACCAAAATGCCTTCAAGTGTAT
* * * *
66074 CTTCGACATGAAAGTATCTTGGTAAAC-CTAAAAGACACAAAAATATTATAAAAGGATGAACCTA
1 CTTCGACGTGAAAGTATCTTAGT-AACTCTAAAAGACACAAAAAGATCATAAAAGGATGAACCTA
* * * * *
66138 TCCTAAATGCATACCTTTGGCATAAAAG-AGACCCGGTG-CTATCTAAGATTCGGTTCTAAGG-A
65 TCCTAAATACATACCTTTGGCATAAAAGCA-ACCCGATGACTACCTAAAACTCGGTTCT-AGGAA
* *
66200 AAATTATCAAAATGCCCTTCAAGTAT-T
128 AAATTACCAAAATG-CCTTCAAGTGTAT
* * *
66227 ACTTCGATGTGAAAG-ATCTTAATAACGCTAAA
1 -CTTCGACGTGAAAGTATCTTAGTAACTCTAAA
66259 GGATATAAAA
Statistics
Matches: 151, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
152 3 0.02
153 59 0.39
154 86 0.57
155 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (154 bp):
CTTCGACGTGAAAGTATCTTAGTAACTCTAAAAGACACAAAAAGATCATAAAAGGATGAACCTAT
CCTAAATACATACCTTTGGCATAAAAGCAACCCGATGACTACCTAAAACTCGGTTCTAGGAAAAA
TTACCAAAATGCCTTCAAGTGTAT
Found at i:68040 original size:154 final size:150
Alignment explanation
Indices: 67628--68083 Score: 394
Period size: 152 Copynumber: 3.0 Consensus size: 150
67618 ATTTTTTTTG
* *** *
67628 TTATCAAAATATAGAGTTTT-TGACTTTGTAAATTTCTCTT-GTAGAATTTTTCTG-AGTAT-AT
1 TTATCAAAATATGGAGTTTTCT-ACTCCATAAATTT-T-TTAGTAGAATTTTTC-GAAGT-TCAA
* * * * *
67689 AATTTTCAAAATTCATCAAATATTATTTTTTATTTCATATTAAATCAATTTTAAAAAATTCAATT
61 AATTTTCAAAATTCATCAAATATT-TTTTTAAATTCATATTAAATCAGTTTT-GAAAATTTAATT
*
67754 TAATTTATGAGTTTTAGAATTTTTCTC
124 TATTTTATGAGTTTTAGAATTTTTCTC
* * **
67781 TTATCAAAATATGGAGTTTTCTACTCCGTAAATTTTTTGGTAGAATTTTTCGAAGTTTGTAAA-T
1 TTATCAAAATATGGAGTTTTCTACTCCATAAATTTTTTAGTAGAATTTTTCGAAG-TTCAAAATT
* * *
67845 TTCAAAATTCATGAAATATTTTTGTTTAAA-TGATATTAAATCAGCTTTGAAAATTTTAATTTAT
65 TTCAAAATTCATCAAATA-TTTT-TTTAAATTCATATTAAATCAGTTTTGAAAA-TTTAATTTAT
*
67909 TTTATAAGTTTTAGAATTTTTCCTCC
127 TTTATGAGTTTTAGAATTTTT-CT-C
* * * * * *
67935 TT-TCGATATAT-GAGATTTTTTACTCCATAAATTTTTTCAATTA-TATTTTTCTTAA-TTCAAA
1 TTATCAAAATATGGAG-TTTTCTACTCCATAAATTTTTT--AGTAGAATTTTTC-GAAGTTCAAA
* * * *
67996 ATTTTTAAAATTCATCAAATGTTTTTATTAAATTCATGTTAAATCAGTTTTTGTAAAATCTAATT
62 ATTTTCAAAATTCATCAAATATTTTT-TTAAATTCATATTAAATCAG-TTTTG-AAAATTTAATT
68061 TATTTTATGAGTTTT-GAATTTTT
124 TATTTTATGAGTTTTAGAATTTTT
68084 TAATATCAAT
Statistics
Matches: 251, Mismatches: 33, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
151 7 0.03
152 83 0.33
153 82 0.33
154 47 0.19
155 28 0.11
156 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (150 bp):
TTATCAAAATATGGAGTTTTCTACTCCATAAATTTTTTAGTAGAATTTTTCGAAGTTCAAAATTT
TCAAAATTCATCAAATATTTTTTTAAATTCATATTAAATCAGTTTTGAAAATTTAATTTATTTTA
TGAGTTTTAGAATTTTTCTC
Found at i:70813 original size:155 final size:155
Alignment explanation
Indices: 70524--71083 Score: 506
Period size: 155 Copynumber: 3.6 Consensus size: 155
70514 AGGGTAAAAG
* * * * * *
70524 TCATCCCATTTACGAT-AATTTTAAGTCCTTTAAGGTT-GCTGAGATACTTTTATATCGAAA-GT
1 TCATCCCATTTATGATCATTTTTAAGTCCTTTAGGGTTATC-AAGATACTTTCATAT-GAAAGGT
* * * * *
70586 ACACCCT-AGGAGCATTTTCGTAATTTTCCTAGAACTATGTCCTAGGTTATCACTGGGATGCTTT
64 ACAACTTAAGG-GCATTTTCGTAATTTTTCTAGAACGA-GTCCTAGGTTGTCACTGGGATGCTTT
70650 TATGCCAAAGGTGTGCATTTAGGATAGGT
127 TATGCCAAAGGTGTGCATTTAGGATAGGT
* * * * *
70679 TCGTCTCATTTATAATCATTTTTAAGTCCTTTAGGGTTATCGAGATACTTTCATATTAAAGGTAC
1 TCATCCCATTTATGATCATTTTTAAGTCCTTTAGGGTTATCAAGATACTTTCATATGAAAGGTAC
* *
70744 AACTTAAGGGCATTTT-GTAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCGAGATGCTTTTAT
66 AACTTAAGGGCATTTTCGTAATTTTTCTAGAA-CGAGTCCTAGGTTGTCACTGGGATGCTTTTAT
* ** * * *
70808 ACCAAAAATATGTATTTAGAATAGGT
130 GCCAAAGGTGTGCATTTAGGATAGGT
* * * * *
70834 TCATCCCTTTTATGATAATTTTTCAA--CCATTTAGGGTTACCAAGATACTTTCATGTCAAAGGT
1 TCATCCCATTTATGATCATTTTT-AAGTCC-TTTAGGGTTATCAAGATACTTTCATATGAAAGG-
* * ** * * *
70897 ATACCTACTTTAGAGATATTTTTGTAATTTTTTTAGAACCGAGTCCTAGGTTGTCATTGGGATGC
63 -TA-CAACTTAAG-GGCATTTTCGTAATTTTTCTAGAA-CGAGTCCTAGGTTGTCACTGGGATGC
70962 TTTTATGCCAAAGGTGTGCATTTAGGAT-GGT
124 TTTTATGCCAAAGGTGTGCATTTAGGATAGGT
* * * * * * ** *
70993 TCACCCCCTTTATGATCATTTTTTAATTCTTTTAGGGTTATTAAGATATTTTCACGTGAAAAGTA
1 TCATCCCATTTATGATCA-TTTTTAAGTCCTTTAGGGTTATCAAGATACTTTCATATGAAAGGTA
* * * *
71058 TACCTTAAGGGTATTTTGGTAATTTT
65 CAACTTAAGGGCATTTTCGTAATTTT
71084 GCGTTAGAAC
Statistics
Matches: 328, Mismatches: 62, Indels: 29
0.78 0.15 0.07
Matches are distributed among these distances:
154 2 0.01
155 122 0.37
156 66 0.20
157 11 0.03
158 9 0.03
159 26 0.08
160 91 0.28
161 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (155 bp):
TCATCCCATTTATGATCATTTTTAAGTCCTTTAGGGTTATCAAGATACTTTCATATGAAAGGTAC
AACTTAAGGGCATTTTCGTAATTTTTCTAGAACGAGTCCTAGGTTGTCACTGGGATGCTTTTATG
CCAAAGGTGTGCATTTAGGATAGGT
Found at i:74203 original size:13 final size:13
Alignment explanation
Indices: 74185--74209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74175 ATTTTGCTTA
74185 GTATCGATACATT
1 GTATCGATACATT
74198 GTATCGATACAT
1 GTATCGATACAT
74210 AAAATTGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:74300 original size:32 final size:33
Alignment explanation
Indices: 74249--74311 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
74239 ACTGTTCATC
74249 TCACTGTTTCAACACTGTTCATGTATCGATAAA
1 TCACTGTTTCAACACTGTTCATGTATCGATAAA
*
74282 TCACTG-TTCATCACTGTTCATGTATCGATA
1 TCACTGTTTCAACACTGTTCATGTATCGATA
74312 CATTGTGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 23 0.79
33 6 0.21
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (33 bp):
TCACTGTTTCAACACTGTTCATGTATCGATAAA
Found at i:75519 original size:10 final size:10
Alignment explanation
Indices: 75504--75539 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
75494 ACATGGATTT
75504 AAAAAAAAAG
1 AAAAAAAAAG
75514 AAAAAAAAAG
1 AAAAAAAAAG
*
75524 AAAAAGAAA-
1 AAAAAAAAAG
75533 AAAAAAA
1 AAAAAAA
75540 TTCAATTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:75529 original size:16 final size:15
Alignment explanation
Indices: 75504--75539 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
75494 ACATGGATTT
75504 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
75519 AAAAGAAAAAGAAAAA
1 AAAA-AAAAAGAAAAA
75535 AAAAA
1 AAAAA
75540 TTCAATTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:76683 original size:113 final size:112
Alignment explanation
Indices: 76471--76694 Score: 283
Period size: 113 Copynumber: 2.0 Consensus size: 112
76461 GACTTTAAAA
* * ** * *
76471 AACATCAAATTTGTCTGATTTTCAAAGAAATTCATATTTTATATGATATGGTCCATTTGTGCTTA
1 AACATCAAATTTATCTGATTTTCAAAGAAATTCATATTTTACACCATATGATCCATTCGTGCTTA
* *
76536 GGAAAATATGGCATGTATTCTACTAATTTTGAAATTTTTGAGCCAAC
66 AGAAAATAAGGCATGTATTCTACTAATTTTGAAATTTTTGAGCCAAC
** *
76583 AACATCAAATTTATCTGATTTTTGAAGAAATTCATATTTTACCCCA-ACCTGATCCATTCGTGCT
1 AACATCAAATTTATCTGATTTTCAAAGAAATTCATATTTTACACCATA--TGATCCATTCGTGCT
*
76647 TAAGAAAATAAGGCATGTA-TCTTA-TCAGTTTTGAAATTTTTGAGCCAA
64 TAAGAAAATAAGGCATGTATTC-TACT-AATTTTGAAATTTTTGAGCCAA
76695 TCAAAGTTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
111 1 0.01
112 42 0.44
113 53 0.55
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (112 bp):
AACATCAAATTTATCTGATTTTCAAAGAAATTCATATTTTACACCATATGATCCATTCGTGCTTA
AGAAAATAAGGCATGTATTCTACTAATTTTGAAATTTTTGAGCCAAC
Found at i:77049 original size:44 final size:43
Alignment explanation
Indices: 77001--77230 Score: 143
Period size: 44 Copynumber: 5.3 Consensus size: 43
76991 GATAACATTG
77001 GCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATACTT
1 GCATTTGCATCATTTCATATGCATTTGCCACTTT-TTGATACTT
* * * *
77045 GCATTTGCATCGTTTCAT-GGACATGTG-CA-TTTTAGATAACATT
1 GCATTTGCATCATTTCATATG-CATTTGCCACTTTTTGAT-AC-TT
* * * ** * *
77088 CGTATTTACATTATTTCATATGCATTTGCCTTTTTCTTGATGCTA
1 -GCATTTGCATCATTTCATATGCATTTGCCACTTT-TTGATACTT
* *
77133 GCATTTGTATCATTTC--ATGCATATGTG-CAC-TTTGGATGACATT
1 GCATTTGCATCATTTCATATGCAT-T-TGCCACTTTTTGAT-AC-TT
* *
77176 AGTATTTGCATCATTTCATATGCA-TTGCCACTTTATTGATGCTT
1 -GCATTTGCATCATTTCATATGCATTTGCCACTTT-TTGATACTT
* *
77220 ACATTTACATC
1 GCATTTGCATC
77231 GCCTCATGTG
Statistics
Matches: 138, Mismatches: 30, Indels: 37
0.67 0.15 0.18
Matches are distributed among these distances:
41 8 0.06
42 14 0.10
43 18 0.13
44 75 0.54
45 6 0.04
46 13 0.09
47 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.44
Consensus pattern (43 bp):
GCATTTGCATCATTTCATATGCATTTGCCACTTTTTGATACTT
Found at i:77061 original size:88 final size:88
Alignment explanation
Indices: 76912--77231 Score: 354
Period size: 88 Copynumber: 3.6 Consensus size: 88
76902 AAATTAAAGG
* * * * * * * *
76912 GGCATTTGGATCATTTCACATACATTTACCCCTTTATTTATGCTTGTAATTGCATCGTTTCATGC
1 GGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGCATCGTTTCATGC
** *
76977 ACAACTACACTTTAGATAACATT
66 ACATGTGCACTTTAGATAACATT
* *
77000 GGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATACTTGCATTTGCATCGTTTCATGG
1 GGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGCATCGTTTCATGC
*
77065 ACATGTGCATTTTAGATAACATT
66 ACATGTGCACTTTAGATAACATT
* * * * ** * * * *
77088 CGTATTTACATTATTTCATATGCATTTGCCTTTTTCTTGATGCTAGCATTTGTATCATTTCATGC
1 GGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGCATCGTTTCATGC
* * *
77153 ATATGTGCACTTTGGATGACATT
66 ACATGTGCACTTTAGATAACATT
* * * *
77176 AGTATTTGCATCATTTCATATGCA-TTGCCACTTTATTGATGCTTACATTTACATCG
1 GGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGCATCG
77232 CCTCATGTGT
Statistics
Matches: 191, Mismatches: 41, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
87 24 0.13
88 167 0.87
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (88 bp):
GGCATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGCATCGTTTCATGC
ACATGTGCACTTTAGATAACATT
Found at i:79933 original size:20 final size:20
Alignment explanation
Indices: 79908--79959 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
79898 TACAAGCCAA
**
79908 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
79928 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
79947 TGTATCGATACAA
1 TGTATCGATACAA
79960 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:86139 original size:21 final size:21
Alignment explanation
Indices: 86115--86171 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
86105 AATTTATCCA
86115 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
86136 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
86157 AATGTATCGATACAT
1 AATGTATCGATACAT
86172 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:86251 original size:19 final size:19
Alignment explanation
Indices: 86227--86294 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
86217 AATTCAACAA
86227 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
86246 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
86261 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
86278 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
86295 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:86266 original size:13 final size:13
Alignment explanation
Indices: 86248--86272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86238 ACATAAGTTT
86248 TGTATCGATACAA
1 TGTATCGATACAA
86261 TGTATCGATACA
1 TGTATCGATACA
86273 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:86270 original size:32 final size:32
Alignment explanation
Indices: 86229--86291 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
86219 TTCAACAATT
*
86229 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
86261 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
86292 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:86371 original size:33 final size:33
Alignment explanation
Indices: 86314--86380 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
86304 GCCAAGGAAA
*** *
86314 TGTATCGATACATTTTTCTGTGTATTGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
86347 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
86380 T
1 T
86381 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:88889 original size:27 final size:27
Alignment explanation
Indices: 88832--88903 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
88822 CTTCACAATC
* **
88832 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
** *
88859 GGGGATACTCCAACCCCGTTTTTCCGA
1 GGGGATACTCCAACCCCGTTAATCAGA
88886 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
88904 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.22, C:0.36, G:0.22, T:0.19
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:89005 original size:78 final size:78
Alignment explanation
Indices: 88858--89060 Score: 248
Period size: 78 Copynumber: 2.6 Consensus size: 78
88848 CGTTAATCAT
* *
88858 CGGGGATACTCCAACCCCGTT-TTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* *
88922 TGATTTCTCATAAT
65 CGATTTCTCATAAC
* * * ** *
88936 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
89000 CGATTTCTCATAAC
65 CGATTTCTCATAAC
* * * *
89014 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
89061 TTATCATCTC
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
77 3 0.03
78 82 0.77
79 22 0.21
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.30
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCATAAC
Found at i:90120 original size:13 final size:13
Alignment explanation
Indices: 90102--90126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90092 CAAAGATCAG
90102 TGTATCGATACAA
1 TGTATCGATACAA
90115 TGTATCGATACA
1 TGTATCGATACA
90127 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:90203 original size:19 final size:18
Alignment explanation
Indices: 90179--90279 Score: 80
Period size: 19 Copynumber: 6.1 Consensus size: 18
90169 AGCGATACAT
90179 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
90198 TGTATCGATAC--A-TTA
1 TGTATCGATACAAACTTA
90213 --TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
90230 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
* *
90243 TGTATCAATATAACACTTA
1 TGTATCGATACAA-ACTTA
90262 TGTATCGATACAAA-TTA
1 TGTATCGATACAAACTTA
90279 T
1 T
90280 TGAAATTCAA
Statistics
Matches: 66, Mismatches: 4, Indels: 26
0.69 0.04 0.27
Matches are distributed among these distances:
13 18 0.27
14 1 0.02
15 3 0.05
16 4 0.06
17 7 0.11
18 2 0.03
19 31 0.47
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:90217 original size:32 final size:32
Alignment explanation
Indices: 90171--90273 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
90161 AGCTTCGTAG
*
90171 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
90203 CGATACATTATATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* *
90235 CGATACATTGTATCAATATAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
90267 CGATACA
1 CGATACA
90274 AATTATTGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:91544 original size:19 final size:18
Alignment explanation
Indices: 91497--91582 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
91487 ATTTCAACAA
*
91497 TTTGTATCGATACAAACAG
1 TTTGTATCGATACATA-AG
*
91516 TAAATGTATCGATACATAAG
1 T--TTGTATCGATACATAAG
91536 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
*
91552 --TGTATTGATACATAAG
1 TTTGTATCGATACATAAG
91568 TATTGTATCGATACA
1 T-TTGTATCGATACA
91583 ATGTATCGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
13 8 0.15
15 4 0.08
17 4 0.08
19 21 0.40
20 3 0.06
21 13 0.25
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:91562 original size:32 final size:32
Alignment explanation
Indices: 91518--91659 Score: 121
Period size: 32 Copynumber: 4.5 Consensus size: 32
91508 ACAAACAGTA
* *
91518 AATGTATCGATACATAAGTGTTGTATCGATAT
1 AATGTATCGATACATAAGTATTGTATCGATAC
*
91550 AATGTATTGATACATAAGTATTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
* * * * *
91582 AATGTATCGCTACA-AAGCTACTG--CCAAGGA-
1 AATGTATCGATACATAAG-TATTGTATCGA-TAC
* * *
91612 AATGTATCGATACATTATTCAATGTATCGATAC
1 AATGTATCGATACATAAGT-ATTGTATCGATAC
*
91645 ATTGTATCGATACAT
1 AATGTATCGATACAT
91660 TGATCTTTGT
Statistics
Matches: 86, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
30 16 0.19
31 8 0.09
32 46 0.53
33 16 0.19
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGTATTGTATCGATAC
Found at i:91652 original size:13 final size:13
Alignment explanation
Indices: 91634--91661 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
91624 CATTATTCAA
91634 TGTATCGATACAT
1 TGTATCGATACAT
91647 TGTATCGATACAT
1 TGTATCGATACAT
91660 TG
1 TG
91662 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:91656 original size:33 final size:33
Alignment explanation
Indices: 91614--91679 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
91604 GCCAAGGAAA
91614 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
91647 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
91680 CTGGAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:95060 original size:156 final size:156
Alignment explanation
Indices: 94772--95101 Score: 412
Period size: 156 Copynumber: 2.1 Consensus size: 156
94762 TACGACAACA
* * * * * ** *
94772 GTTATCAAGATACTTTCATGTCAAAGGTATGCTTTAAGGGTATTTTTGTAATTTTTAAAAATTGA
1 GTTACCAAGATACTTTCATGTCAAAGATATACCTTAAGCGTATTTTCATAATTTTTAAAAATAGA
* * * * * * *
94837 GTCGTAGGTTGTCATCGGGATGCTTTTATGCCAAAGGTGTGTATTTAGGATAGGCTCATCCCATT
66 GTCCTAAGTTGTCACCAGGATGCATTTATGCCAAAGGTGTGCATTCAGGATAGGCTCATCCCATT
94902 TATGATCA-TTTTTAAGTCATTTAGG
131 TATGATCATTTTTTAAGTCATTTAGG
* * *
94927 GTTACCAAGATACTTTCATGTCGAAGATATACCTTAAGCGTATTTTCATAATTTTTTTAGAATAG
1 GTTACCAAGATACTTTCATGTCAAAGATATACCTTAAGCGTATTTTCATAA-TTTTTAAAAATAG
* *
94992 AGTCCTAAGTTGTCACCAGGATGCATTTATGCCAAAGGTGTGCATTGCA-GATAGGTTCATCTCA
65 AGTCCTAAGTTGTCACCAGGATGCATTTATGCCAAAGGTGTGCATT-CAGGATAGGCTCATCCCA
*
95056 TTTATGATCATTTTTTAAGTCCTTTAGG
129 TTTATGATCATTTTTTAAGTCATTTAGG
* * *
95084 ATTACCGAGATATTTTCA
1 GTTACCAAGATACTTTCA
95102 CGTTAAAGGT
Statistics
Matches: 148, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
155 43 0.29
156 73 0.49
157 32 0.22
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (156 bp):
GTTACCAAGATACTTTCATGTCAAAGATATACCTTAAGCGTATTTTCATAATTTTTAAAAATAGA
GTCCTAAGTTGTCACCAGGATGCATTTATGCCAAAGGTGTGCATTCAGGATAGGCTCATCCCATT
TATGATCATTTTTTAAGTCATTTAGG
Found at i:96691 original size:27 final size:27
Alignment explanation
Indices: 96649--96700 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
96639 TTGACTAAAG
* *
96649 CATAAATATTATTAATTAATATCAAAA
1 CATAAATATTATTAATGAAAATCAAAA
96676 CATAAATTATTA-TAATGAAAATCAA
1 CATAAA-TATTATTAATGAAAATCAA
96701 CACAAATACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (27 bp):
CATAAATATTATTAATGAAAATCAAAA
Found at i:98833 original size:25 final size:25
Alignment explanation
Indices: 98799--98849 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
98789 AAGTTGAAAG
*
98799 AGGTGTTGACTAGGGCGAAACCAGT
1 AGGTGTTGACTAGGGCAAAACCAGT
*
98824 AGGTGTTGACTAGGGCAAAACTAGT
1 AGGTGTTGACTAGGGCAAAACCAGT
98849 A
1 A
98850 AAGTCAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (25 bp):
AGGTGTTGACTAGGGCAAAACCAGT
Found at i:101705 original size:36 final size:36
Alignment explanation
Indices: 101654--101724 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
101644 ATGTATCGAT
101654 ACACTATATCAATACTGAATGAATTTAGCTACTGCC
1 ACACTATATCAATACTGAATGAATTTAGCTACTGCC
* * *
101690 ACACTGTATCGATACTGAATGAGTTTAGCTACTGC
1 ACACTATATCAATACTGAATGAATTTAGCTACTGC
101725 TAGTTTCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (36 bp):
ACACTATATCAATACTGAATGAATTTAGCTACTGCC
Found at i:102461 original size:21 final size:21
Alignment explanation
Indices: 102437--102476 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
102427 CAATAAGTAA
* *
102437 CTCCCTCTTAATAGAATTTAT
1 CTCCCCCTTAATAAAATTTAT
102458 CTCCCCCTTAATAAAATTT
1 CTCCCCCTTAATAAAATTT
102477 TTCTTTCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.40
Consensus pattern (21 bp):
CTCCCCCTTAATAAAATTTAT
Found at i:103007 original size:21 final size:21
Alignment explanation
Indices: 102968--103007 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
102958 CAATATGTAA
**
102968 CTCCCCCTTAATAGCATTTAT
1 CTCCCCCTTAATAAAATTTAT
102989 CTCCCCCTTAATAAAATTT
1 CTCCCCCTTAATAAAATTT
103008 TTCTTTCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.38
Consensus pattern (21 bp):
CTCCCCCTTAATAAAATTTAT
Found at i:103124 original size:531 final size:530
Alignment explanation
Indices: 102119--103241 Score: 1883
Period size: 531 Copynumber: 2.1 Consensus size: 530
102109 AACAAAACCT
*
102119 TAAAAATAAATTTGGTTGACTTTACTCACTGTCAATTATATAAATTTTAACATATGCA-TTTTGA
1 TAAAAATAAATTTGGTTGACTTTACTCACTGTCAATTATATAAATTTCAACATATGCATTTTTGA
* * **
102183 AAAGCGTTTATAACCTTACCGATTATTTTAAGCTTGTATGCAATCATTTTCTTCGTATCAAAAAG
66 AAAGCGTTTATAACCTTACCGATTATTTCAAACTTGTATGCAATCATTCCCTTCGTATCAAAAAG
* * *
102248 ATTCGTAACCTGTATTTTGATATCCATAACTCAAGAAACATATTAGAAAAGTTCATTTGATATTC
131 ATTCGTAACATGTATTCTGATATCCATAACTCAAGAAACATATTAAAAAAGTTCATTTGATATTC
* * *
102313 AATAAAGTCCCGAAATGTTCTTTTCAATTTAACCCAAAACATTTCTTTTATGAACCTCTCTGCTT
196 AATAAAGTCCCGAAATGTTCTTCTCAATTTAACCCAAAACATTTCTTTTATGAACATCTCTGCCT
*
102378 TTGTTTTTATTTAAAACAGATTTTCATTAAGAGGTTTAAGGCAAATTTTCAATAAGTAACTCCCT
261 TTGTTTTTATTTAAAACAGATTTTCATTAAGAGGTTTAAGGCAAATTTTCAATAAGTAACTCCCC
102443 CTTAATAGAATTTATCTCCCCCTTAATAAAATTTTTCTTTCTCCCCCTTAATAAAAAATTAGATA
326 CTTAATAGAATTTATCTCCCCCTTAATAAAATTTTTCTTTCTCCCCCTTAATAAAAAATTAGATA
* *
102508 TTTTAAAAAAAATTTCTTCCCTTTTTTGTTATCTCCCAAATTTTACAACACTTCCACAAAATCTC
391 TTTTAAAAAAAAATTC-TCCCATTTTTGTTATCTCCCAAATTTTACAACACTTCCACAAAATCTC
* *
102573 CCCCTTTATAAAACAAATTTATTTCAAAATATCTCTTCCCATTTTTTGTTATAGCAAAAAGGAGA
455 CCCCTTTATAAAACAAATTTATTTCAAAATATCTCTTCCC-CTTTTTGTTATAGCAAAAAAGAGA
*
102638 TCAAAGGAAATA
519 TCAAAGGAAACA
* * *
102650 TAAAAATAAATTTGGTTGACTTTACTTACTGTCAATTGTATAAATTTCAACATATGCATTTTTGG
1 TAAAAATAAATTTGGTTGACTTTACTCACTGTCAATTATATAAATTTCAACATATGCATTTTTGA
* *
102715 AAAGTGTTTATAACCTTACCGATTATTTCAAACTTGTATGCAATCATTCCCTTCGTATCAACAAG
66 AAAGCGTTTATAACCTTACCGATTATTTCAAACTTGTATGCAATCATTCCCTTCGTATCAAAAAG
102780 ATTCGTAACATGTATTCTGATATCCATAACTCAAGAAACATATTAAAAAAGTTCATTTGATATTC
131 ATTCGTAACATGTATTCTGATATCCATAACTCAAGAAACATATTAAAAAAGTTCATTTGATATTC
* *
102845 AATAAAGTCCCGAAATGTTCTTCTCAATTTAACCCGAAATATTTCTTTTATGAACATCTCT-CCT
196 AATAAAGTCCCGAAATGTTCTTCTCAATTTAACCCAAAACATTTCTTTTATGAACATCTCTGCCT
* *
102909 TTGTTTTTATTTAAAACAGATTTTTATTAAGAGGTTTAAGGCAAATTTTCAATATGTAACTCCCC
261 TTGTTTTTATTTAAAACAGATTTTCATTAAGAGGTTTAAGGCAAATTTTCAATAAGTAACTCCCC
* *
102974 CTTAATAGCATTTATCTCCCCCTTAATAAAATTTTTCTTTCTCCCCCTTAATAAGAAATTAGATA
326 CTTAATAGAATTTATCTCCCCCTTAATAAAATTTTTCTTTCTCCCCCTTAATAAAAAATTAGATA
103039 TTTTTAAAAAAAAAATTC-CCCATTTTTGTTATCTCCCAAATTTTACAACACTTCCACAAAATCT
391 -TTTT-AAAAAAAAATTCTCCCATTTTTGTTATCTCCCAAATTTTACAACACTTCCACAAAATCT
*
103103 CCCCCTTTATAAAATAAATTTATTTCAAAATATCTCTTCCCCTTTTTGTTATAGCAAAAAAGAGA
454 CCCCCTTTATAAAACAAATTTATTTCAAAATATCTCTTCCCCTTTTTGTTATAGCAAAAAAGAGA
*
103168 TCAAGGGAAACA
519 TCAAAGGAAACA
* * * *
103180 TAAAAATAAATTTGATTGACTTTTCTCACTATCACTTATATAAATTTCAACATATGCATTTT
1 TAAAAATAAATTTGGTTGACTTTACTCACTGTCAATTATATAAATTTCAACATATGCATTTT
103242 CCTTATCCAT
Statistics
Matches: 553, Mismatches: 36, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
530 88 0.16
531 267 0.48
532 187 0.34
533 11 0.02
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (530 bp):
TAAAAATAAATTTGGTTGACTTTACTCACTGTCAATTATATAAATTTCAACATATGCATTTTTGA
AAAGCGTTTATAACCTTACCGATTATTTCAAACTTGTATGCAATCATTCCCTTCGTATCAAAAAG
ATTCGTAACATGTATTCTGATATCCATAACTCAAGAAACATATTAAAAAAGTTCATTTGATATTC
AATAAAGTCCCGAAATGTTCTTCTCAATTTAACCCAAAACATTTCTTTTATGAACATCTCTGCCT
TTGTTTTTATTTAAAACAGATTTTCATTAAGAGGTTTAAGGCAAATTTTCAATAAGTAACTCCCC
CTTAATAGAATTTATCTCCCCCTTAATAAAATTTTTCTTTCTCCCCCTTAATAAAAAATTAGATA
TTTTAAAAAAAAATTCTCCCATTTTTGTTATCTCCCAAATTTTACAACACTTCCACAAAATCTCC
CCCTTTATAAAACAAATTTATTTCAAAATATCTCTTCCCCTTTTTGTTATAGCAAAAAAGAGATC
AAAGGAAACA
Found at i:106272 original size:264 final size:264
Alignment explanation
Indices: 105796--106314 Score: 896
Period size: 264 Copynumber: 2.0 Consensus size: 264
105786 ATATTAGGCC
* * * * *
105796 AAAGAGTACAATGCCTTGGATGCAATGTTATACGAATTGCTTTTGTGGGAGTAGGTAGGATCACT
1 AAAGAATACAATGCCTTGGATGCAATGTTATACGAAGTGCTCTTGTGAGAGCAGGTAGGATCACT
* * *
105861 GGTGATACCCAGTGCCTTTGCAAGGGTACGTAGGATCATTAGGCTAGGCCTTCCACAAAAACTAG
66 GGTGATACCCAGCGCCTTTGCAAGGGTACGTAAGATCATTAGGCTAGGCCTTACACAAAAACTAG
105926 TCAAACTTTCAGAATTTGGTGATTGGCTGTTGTCGTCATCATTGCCTACCACACCACATGTGGTC
131 TCAAACTTTCAGAATTTGGTGATTGGCTGTTGTCGTCATCATTGCCTACCACACCACATGTGGTC
* *
105991 TTTTTGAGCCAACAATTCATCAAAGATCCCTTTTGGCCTCCTTTTCCATCCTATGCACTTTATGG
196 TTTTTGAGCCAACAATTCATCAAAGATCCCTTTTGGCCTCCTCTTCCATCCTATCCACTTTATGG
106056 GCTT
261 GCTT
*
106060 AAAGAATACAATGCCTTGGATGCAATGTTATACTAAGTGCTCTTGTGAGAGCAGGTAGGATCACT
1 AAAGAATACAATGCCTTGGATGCAATGTTATACGAAGTGCTCTTGTGAGAGCAGGTAGGATCACT
* *
106125 GGTGATATCTAGCGCCTTTGCAA-GGTACGTAAGATCATTAGGCTAGGCCCTTACACAAAAACTA
66 GGTGATACCCAGCGCCTTTGCAAGGGTACGTAAGATCATTAGGCTAGG-CCTTACACAAAAACTA
*
106189 GTCAAATTTTCAGAATTTGGTGATTGGCTGTTGTCGTCATCATTGCCTACCACACCACATGTGGT
130 GTCAAACTTTCAGAATTTGGTGATTGGCTGTTGTCGTCATCATTGCCTACCACACCACATGTGGT
106254 CTTTTTGAGCCAACAATTCATCAAAGATCCCTTTTGGCCTCCTCTTCCATCCTATCCACTT
195 CTTTTTGAGCCAACAATTCATCAAAGATCCCTTTTGGCCTCCTCTTCCATCCTATCCACTT
106315 ATTTTTCTAC
Statistics
Matches: 240, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
263 23 0.10
264 217 0.90
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (264 bp):
AAAGAATACAATGCCTTGGATGCAATGTTATACGAAGTGCTCTTGTGAGAGCAGGTAGGATCACT
GGTGATACCCAGCGCCTTTGCAAGGGTACGTAAGATCATTAGGCTAGGCCTTACACAAAAACTAG
TCAAACTTTCAGAATTTGGTGATTGGCTGTTGTCGTCATCATTGCCTACCACACCACATGTGGTC
TTTTTGAGCCAACAATTCATCAAAGATCCCTTTTGGCCTCCTCTTCCATCCTATCCACTTTATGG
GCTT
Found at i:107465 original size:3 final size:3
Alignment explanation
Indices: 107459--107489 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
107449 GCTTCTTCTT
107459 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
107490 GAACAAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:111426 original size:16 final size:16
Alignment explanation
Indices: 111399--111446 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
111389 TAAAGATATC
111399 TATTAA-TATTTTAAA
1 TATTAATTATTTTAAA
111414 TATTAATTATTTTAAA
1 TATTAATTATTTTAAA
**
111430 TAAAAATTATTTTAAA
1 TATTAATTATTTTAAA
111446 T
1 T
111447 TAAAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 6 0.20
16 24 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTAATTATTTTAAA
Found at i:111451 original size:16 final size:16
Alignment explanation
Indices: 111405--111458 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
111395 TATCTATTAA
*
111405 TATTTTAAA-TATTAAT
1 TATTTTAAATTA-AAAT
*
111421 TATTTTAAATAAAAAT
1 TATTTTAAATTAAAAT
111437 TATTTTAAATTAAAAT
1 TATTTTAAATTAAAAT
111453 T-TTTTA
1 TATTTTA
111459 GTAAAATAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 5 0.15
16 28 0.82
17 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTTTAAATTAAAAT
Found at i:113591 original size:22 final size:23
Alignment explanation
Indices: 113546--113599 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
113536 ATATTATTCT
* *
113546 TTATATTATAAAATTATTTAATA
1 TTATAATATAAAATTATATAATA
113569 -TATAATATAAAATTA-ATATATA
1 TTATAATATAAAATTATATA-ATA
113591 TTATAATAT
1 TTATAATAT
113600 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 17 0.63
23 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTATAATATAAAATTATATAATA
Found at i:113604 original size:25 final size:24
Alignment explanation
Indices: 113548--113605 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 24
113538 ATTATTCTTT
*
113548 ATATTATAAAATTATTTAATATATA
1 ATATT-TAAAATTATATAATATATA
113573 ATA--TAAAATTA-ATATATATTATA
1 ATATTTAAAATTATATA-ATA-TATA
113596 ATATTTAAAA
1 ATATTTAAAA
113606 AATAAGTCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
21 2 0.07
22 11 0.39
23 7 0.25
25 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATTTAAAATTATATAATATATA
Found at i:114060 original size:2 final size:2
Alignment explanation
Indices: 114048--114100 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
114038 AAAATAAAAT
*
114048 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
114090 TA TA TA TA TA T
1 TA TA TA TA TA T
114101 TTGTTTGAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:114292 original size:9 final size:9
Alignment explanation
Indices: 114276--114308 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
114266 TCCATTAATA
114276 TATTTTATT
1 TATTTTATT
*
114285 TGTTTTATT
1 TATTTTATT
114294 TATTTTATT
1 TATTTTATT
114303 TATTTT
1 TATTTT
114309 TAAAGTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TATTTTATT
Found at i:116914 original size:3 final size:3
Alignment explanation
Indices: 116906--116939 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
116896 TTTTGGTCTG
*
116906 TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
116940 TGTGTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:117666 original size:17 final size:18
Alignment explanation
Indices: 117638--117673 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
117628 TATTTTTTAC
*
117638 ATAAAATATTTTTTAATT
1 ATAAAATATTTTTCAATT
117656 ATAAAAT-TTTTTCAATT
1 ATAAAATATTTTTCAATT
117673 A
1 A
117674 CTATTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAAAATATTTTTCAATT
Found at i:117940 original size:25 final size:27
Alignment explanation
Indices: 117901--117954 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
117891 TTTTGATATT
* **
117901 AATAAATTATGTTATTTTTA-TTTAAA
1 AATAAATTATATTATCATTATTTTAAA
117927 AATAAATTA-ATTATCATTATTTTAAA
1 AATAAATTATATTATCATTATTTTAAA
117953 AA
1 AA
117955 ATTTAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
AATAAATTATATTATCATTATTTTAAA
Found at i:118147 original size:14 final size:13
Alignment explanation
Indices: 118109--118150 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
118099 TTTTAATTAA
118109 TTAATAAA-TA-T
1 TTAATAAATTATT
118120 TTAATAAATTATT
1 TTAATAAATTATT
118133 TTAATAAATTTATT
1 TTAATAAA-TTATT
118147 TTAA
1 TTAA
118151 AGTTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
13 9 0.32
14 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATAAATTATT
Found at i:119221 original size:25 final size:25
Alignment explanation
Indices: 119192--119252 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
119182 TTTTTTTAGC
*
119192 CTTTATTTATAGAAACTTTAGACAA
1 CTTTATTTACAGAAACTTTAGACAA
119217 CTTTATTTACAGAAACTTTAGACAA
1 CTTTATTTACAGAAACTTTAGACAA
119242 CTTTATTTACA
1 CTTTATTTACA
119253 TGCAACTCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.41
Consensus pattern (25 bp):
CTTTATTTACAGAAACTTTAGACAA
Found at i:125570 original size:52 final size:51
Alignment explanation
Indices: 125492--125640 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
125482 CGAAATATGA
125492 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
125544 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
125596 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
125641 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:125647 original size:13 final size:13
Alignment explanation
Indices: 125629--125653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125619 CAAAGATCAG
125629 TGTATCGATACAA
1 TGTATCGATACAA
125642 TGTATCGATACA
1 TGTATCGATACA
125654 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:125731 original size:33 final size:33
Alignment explanation
Indices: 125694--125760 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
125684 AGTAGCTTAA
125694 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
125727 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
125760 A
1 A
125761 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:125734 original size:13 final size:13
Alignment explanation
Indices: 125716--125740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125706 CAAAAAAATA
125716 TGTATCGATACAT
1 TGTATCGATACAT
125729 TGTATCGATACA
1 TGTATCGATACA
125741 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:126690 original size:52 final size:52
Alignment explanation
Indices: 126558--126769 Score: 208
Period size: 52 Copynumber: 4.2 Consensus size: 52
126548 GAAAAGTGAT
* * * * * * * *
126558 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-A
* * *
126612 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
126665 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
126708 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
126760 AAAGGTGCCA
1 AAAGGTGCCA
126770 CCGACTTGTG
Statistics
Matches: 130, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 38 0.29
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 42 0.32
53 6 0.05
54 5 0.04
55 35 0.27
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:126726 original size:43 final size:43
Alignment explanation
Indices: 126665--126754 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
126655 TAAAGATGGA
*
126665 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
126708 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
126751 AAAG
1 AAAG
126755 ATGGAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:126886 original size:28 final size:28
Alignment explanation
Indices: 126760--126955 Score: 225
Period size: 30 Copynumber: 6.9 Consensus size: 28
126750 TAAAGATGGA
* **
126760 AAAGG-TGCCACCGACTTGTGGGCTTCGGA
1 AAAGGTTGCCACTGACTTGTGGGCTT--TT
* *
126789 AAAGGGTGCCACTGATTTGTGGGC-TTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTT
*
126816 GAAGGTTGCCACTGACTTGTGGGCTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTT
* *
126844 GAAAAGGGTGCCACTAACTTGTGGGCTTTT
1 --AAAGGTTGCCACTGACTTGTGGGCTTTT
126874 AAAGGTTGCCACTGACTTGTGGGCTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTT
** *
126902 GAAAAATATGCCACTAACTTGTGGGCTTTT
1 -AAAGGT-TGCCACTGACTTGTGGGCTTTT
126932 AAAGGTTGCCACTGACTTGTGGGC
1 AAAGGTTGCCACTGACTTGTGGGC
126956 CCACTGACTT
Statistics
Matches: 143, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
27 21 0.15
28 46 0.32
29 14 0.10
30 62 0.43
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (28 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTT
Found at i:126900 original size:58 final size:58
Alignment explanation
Indices: 126760--126955 Score: 297
Period size: 58 Copynumber: 3.4 Consensus size: 58
126750 TAAAGATGGA
* ** * *
126760 AAAGG-TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTT
*
126816 GAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTT
***
126874 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTAACTTGTGGGCTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTT
126932 AAAGGTTGCCACTGACTTGTGGGC
1 AAAGGTTGCCACTGACTTGTGGGC
126956 CCACTGACTT
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
56 4 0.03
57 43 0.34
58 81 0.63
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (58 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTT
Found at i:126961 original size:16 final size:16
Alignment explanation
Indices: 126940--126971 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
126930 TTAAAGGTTG
126940 CCACTGACTTGTGGGC
1 CCACTGACTTGTGGGC
126956 CCACTGACTTGTGGGC
1 CCACTGACTTGTGGGC
126972 TTTTGAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.25
Consensus pattern (16 bp):
CCACTGACTTGTGGGC
Found at i:126975 original size:44 final size:45
Alignment explanation
Indices: 126912--127001 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 45
126902 GAAAAATATG
* *
126912 CCACTAACTTGTGGGCTTTT-AAAGGTTGCCACTGACTTGTGGGC
1 CCACTAACTTGTGGGCTTTTAAAAGGGTGCCACTAACTTGTGGGC
*
126956 CCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGC
1 CCACTAACTTGTGGGCTTTT-AAAAGGGTGCCACTAACTTGTGGGC
127002 TGAAAAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.46
46 22 0.54
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (45 bp):
CCACTAACTTGTGGGCTTTTAAAAGGGTGCCACTAACTTGTGGGC
Found at i:126996 original size:30 final size:30
Alignment explanation
Indices: 126956--127192 Score: 153
Period size: 30 Copynumber: 7.8 Consensus size: 30
126946 ACTTGTGGGC
*
126956 CCACTGACTTGTGGGCTTTTGAAAAGGGTG
1 CCACTGACTTGTGGGCTTTTGAAAAGGATG
* *** *
126986 CCACTAACTTGTGGGCTGAAAAAGAAAAAGAGTG
1 CCACTGACTTGTGGGCT---TTTGAAAAGGA-TG
* * * *
127020 CTACGGAGTTGTGGTGTGGACTTTGGAAAA-GATG
1 CCACTGA-CT-T-GTG-GG-CTTTTGAAAAGGATG
* * *
127054 CCACCGACTTGTGGGC-TTCGAAAAAGGGTG
1 CCACTGACTTGTGGGCTTTTG-AAAAGGATG
* *
127084 CCACTGATTTGTGGGC-TTTG--AAGGTTG
1 CCACTGACTTGTGGGCTTTTGAAAAGGATG
**
127111 CCACTGACTTGTGGGCTTTTGAAAAAAATG
1 CCACTGACTTGTGGGCTTTTGAAAAGGATG
**
127141 CCACTGACTTGTGGGC-TTTGAAAAAAATG
1 CCACTGACTTGTGGGCTTTTGAAAAGGATG
* *
127170 CCACTGACTTGTGGACATTTGAA
1 CCACTGACTTGTGGGCTTTTGAA
127193 GGGTGATGAA
Statistics
Matches: 165, Mismatches: 27, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
27 21 0.13
28 7 0.04
29 33 0.20
30 64 0.39
31 3 0.02
32 1 0.01
33 7 0.04
34 13 0.08
35 3 0.02
36 6 0.04
37 3 0.02
38 2 0.01
39 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (30 bp):
CCACTGACTTGTGGGCTTTTGAAAAGGATG
Found at i:127078 original size:29 final size:29
Alignment explanation
Indices: 127034--127192 Score: 178
Period size: 30 Copynumber: 5.4 Consensus size: 29
127024 GGAGTTGTGG
* * *
127034 TGTGGACTTTGGAAAAGATGCCACCGACT
1 TGTGGGCTTTGAAAAAGATGCCACTGACT
* * *
127063 TGTGGGCTTCGAAAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAA-GATGCCACTGACT
* *
127093 TGTGGGCTTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAAAGATGCCACTGACT
*
127120 TGTGGGCTTTTGAAAAAAATGCCACTGACT
1 TGTGGGC-TTTGAAAAAGATGCCACTGACT
*
127150 TGTGGGCTTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTGAAAAAGATGCCACTGACT
*
127179 TGTGGACATTTGAA
1 TGTGGGC-TTTGAA
127193 GGGTGATGAA
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.16
28 6 0.05
29 41 0.37
30 46 0.41
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAAGATGCCACTGACT
Found at i:127124 original size:57 final size:57
Alignment explanation
Indices: 127052--127162 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 57
127042 TTGGAAAAGA
** *
127052 TGCCACCGACTTGTGGGC-TTCGAAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGT
1 TGCCACCGACTTGTGGGCTTTCGAAAAA-AATGCCACTGACTTGTGGGCTTTGAAGGT
* *
127109 TGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTGAA
1 TGCCACCGACTTGTGGGCTTTCGAAAAAAATGCCACTGACTTGTGGGCTTTGAA
127163 AAAAATGCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 40 0.83
58 8 0.17
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (57 bp):
TGCCACCGACTTGTGGGCTTTCGAAAAAAATGCCACTGACTTGTGGGCTTTGAAGGT
Found at i:128638 original size:1 final size:1
Alignment explanation
Indices: 128634--128699 Score: 69
Period size: 1 Copynumber: 66.0 Consensus size: 1
128624 CTTTTTGTTG
* * * * * * *
128634 TTTTTTTTTCTCTTTTTTTTCTTTTTTTTTTGTTGTTTTTTTTCTTTCTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
128699 T
1 T
128700 GCGGAGGACG
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (1 bp):
T
Found at i:128660 original size:23 final size:22
Alignment explanation
Indices: 128634--128699 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 22
128624 CTTTTTGTTG
*
128634 TTTTTTTTTCTCTTTTTTTTCT
1 TTTTTTTTTTTCTTTTTTTTCT
*
128656 TTTTTTTTTGTTGTTTTTTTTCT
1 TTTTTTTTT-TTCTTTTTTTTCT
*
128679 TTCTTTTTTTTTTTTTTTTTT
1 TT-TTTTTTTTTCTTTTTTTT
128700 GCGGAGGACG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 9 0.23
23 23 0.59
24 7 0.18
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (22 bp):
TTTTTTTTTTTCTTTTTTTTCT
Found at i:128667 original size:32 final size:33
Alignment explanation
Indices: 128625--128697 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
128615 ATTCGAACCC
*
128625 TTTTTGTTGTTTTTTTTTCTCTTTTTTTTCTTTTT
1 TTTTTGTTG-TTTTTTTTCT-TTCTTTTTCTTTTT
*
128660 TTTTTGTTGTTTTTTTTCTTTCTTTTTTTTTTT
1 TTTTTGTTGTTTTTTTTCTTTCTTTTTCTTTTT
128693 TTTTT
1 TTTTT
128698 TTGCGGAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 17 0.47
34 10 0.28
35 9 0.25
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (33 bp):
TTTTTGTTGTTTTTTTTCTTTCTTTTTCTTTTT
Found at i:128669 original size:35 final size:35
Alignment explanation
Indices: 128625--128700 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
128615 ATTCGAACCC
128625 TTTTTGTTGTTTTTTTT-TCTCTTTTTTTTCTTTTT
1 TTTTTGTTGTTTTTTTTCTCTCTTTTTTTT-TTTTT
*
128660 TTTTTGTTGTTTTTTTTCTTTCTTTTTTTTTTTTT
1 TTTTTGTTGTTTTTTTTCTCTCTTTTTTTTTTTTT
128695 TTTTTG
1 TTTTTG
128701 CGGAGGACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 28 0.72
36 11 0.28
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (35 bp):
TTTTTGTTGTTTTTTTTCTCTCTTTTTTTTTTTTT
Found at i:132904 original size:3 final size:3
Alignment explanation
Indices: 132896--132921 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
132886 AAGGTTTGGT
132896 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
132922 TCAATCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:134730 original size:13 final size:13
Alignment explanation
Indices: 134712--134737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
134702 CACTTTCAGA
134712 TGTATCGATACAT
1 TGTATCGATACAT
134725 TGTATCGATACAT
1 TGTATCGATACAT
134738 GTTCAGTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:134733 original size:33 final size:32
Alignment explanation
Indices: 134692--134753 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
134682 AACCCTTGTA
*
134692 TGTATCGATACACT-TTCAGATGTATCGATACAT
1 TGTATCGATACA-TGTTCAG-TGCATCGATACAT
134725 TGTATCGATACATGTTCAGTGCATCGATA
1 TGTATCGATACATGTTCAGTGCATCGATA
134754 TATGAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATGTTCAGTGCATCGATACAT
Found at i:134843 original size:33 final size:33
Alignment explanation
Indices: 134806--134873 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
134796 TTACCACTAT
* ** *
134806 TTGTATCGATACATGGCAAATTGTATCGATACA
1 TTGTATCCATACATGAAAAATTATATCGATACA
134839 TTGTATCCATACATGAAAAATTATATCGATACA
1 TTGTATCCATACATGAAAAATTATATCGATACA
134872 TT
1 TT
134874 ATCCCAAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (33 bp):
TTGTATCCATACATGAAAAATTATATCGATACA
Found at i:136361 original size:13 final size:13
Alignment explanation
Indices: 136343--136367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136333 CAATTCATCG
136343 TGTATCGATACAT
1 TGTATCGATACAT
136356 TGTATCGATACA
1 TGTATCGATACA
136368 AAAACAGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:136450 original size:19 final size:20
Alignment explanation
Indices: 136423--136471 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
136413 ATTGTCCATA
*
136423 TATCGATACAATGAAT-ATG
1 TATCGATACAAGGAATAATG
* *
136442 TATCAATACAAGGCATAATG
1 TATCGATACAAGGAATAATG
136462 TATCGATACA
1 TATCGATACA
136472 TCTGGGTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (20 bp):
TATCGATACAAGGAATAATG
Found at i:141063 original size:108 final size:108
Alignment explanation
Indices: 140874--141089 Score: 423
Period size: 108 Copynumber: 2.0 Consensus size: 108
140864 GATATTATTT
140874 TTGGTGCTATTAATGAATCCTTGTGTCAAGAATTCTCTAAGTTAATGCAAGGTGAATTCAAGATG
1 TTGGTGCTATTAATGAATCCTTGTGTCAAGAATTCTCTAAGTTAATGCAAGGTGAATTCAAGATG
140939 AGCATGATGGGAGAATTAGCATTCTTTTTGGGACTTCAAGTAA
66 AGCATGATGGGAGAATTAGCATTCTTTTTGGGACTTCAAGTAA
*
140982 TTGGTGCTATTAATGAATCCTTGTGTCAAGAATTCTCTAAGTTAATGCAAGGTGAATTCGAGATG
1 TTGGTGCTATTAATGAATCCTTGTGTCAAGAATTCTCTAAGTTAATGCAAGGTGAATTCAAGATG
141047 AGCATGATGGGAGAATTAGCATTCTTTTTGGGACTTCAAGTAA
66 AGCATGATGGGAGAATTAGCATTCTTTTTGGGACTTCAAGTAA
141090 GGCAAACGAA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (108 bp):
TTGGTGCTATTAATGAATCCTTGTGTCAAGAATTCTCTAAGTTAATGCAAGGTGAATTCAAGATG
AGCATGATGGGAGAATTAGCATTCTTTTTGGGACTTCAAGTAA
Found at i:143801 original size:33 final size:33
Alignment explanation
Indices: 143749--143850 Score: 168
Period size: 33 Copynumber: 3.1 Consensus size: 33
143739 AGTTGATCAC
* * * *
143749 TTCACTTTCACAGCACATGGATGAGCACTTTAG
1 TTCACTTTCGCAGCGCATGGATAAGAACTTTAG
143782 TTCACTTTCGCAGCGCATGGATAAGAACTTTAG
1 TTCACTTTCGCAGCGCATGGATAAGAACTTTAG
143815 TTCACTTTCGCAGCGCATGGATAAGAACTTTAG
1 TTCACTTTCGCAGCGCATGGATAAGAACTTTAG
143848 TTC
1 TTC
143851 TCTTAACTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (33 bp):
TTCACTTTCGCAGCGCATGGATAAGAACTTTAG
Found at i:144649 original size:21 final size:22
Alignment explanation
Indices: 144625--144674 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
144615 TTTCAATAAG
* *
144625 TGTTTTTGAGTTTTGAA-CAAA
1 TGTTTTTGAGCTTTAAATCAAA
*
144646 TGTTTTTGAGCTTTAAATCGAA
1 TGTTTTTGAGCTTTAAATCAAA
144668 TGTTTTT
1 TGTTTTT
144675 AAGTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (22 bp):
TGTTTTTGAGCTTTAAATCAAA
Found at i:147513 original size:79 final size:78
Alignment explanation
Indices: 147203--147574 Score: 342
Period size: 79 Copynumber: 4.7 Consensus size: 78
147193 CCGAGGGGAT
* * * ** * *
147203 ATACTCTAACCCCGGTTTTATCCCCAAAATATCGATTTTTCACAATCGGGGATACTCGAACCCTG
1 ATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCG-ACCCCG
147268 TTATTATTGTG-GA-A
65 TTATT-TT-TGAGAGA
* *
147282 ATACTCCAACCCTGATTTTATCTT--AAAACA-CTGATTCTTCACAATCGGGGATACTCTAGCCC
1 ATACTCCAACCCTGATTTTAT-TTCCAAAACATC-GATTTTTCACAATCGGGGATACTCGA-CCC
* * * *
147344 CGTTATTTCTAAGGGG
63 CGTTATTTTTGAGAGA
* * * * * *
147360 ATACTCCAA-CCTCGGTTTTATCTCCAAAACATCGATTTTTCACAATCGAGGACACTCTAACCTC
1 ATACTCCAACCCT-GATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTC-GACCCC
147424 GTTATTTTTGAGAGA
64 GTTATTTTTGAGAGA
* * *
147439 ATACTCCAACCCTGATTTTATTTCCAAAACATCAATTTTCCTCAATCGGGGATACTCCGACCCCG
1 ATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACT-CGACCCCG
*
147504 TTATTTTTGAGAGG
65 TTATTTTTGAGAGA
** * * * * **
147518 ATACTGTAACCTTGATTTTATTTCCAAAGCACCGATTTTTCATAATCATGGATACTC
1 ATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTC
147575 CAATCCCGAT
Statistics
Matches: 236, Mismatches: 45, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
76 1 0.00
77 8 0.03
78 54 0.23
79 167 0.71
80 6 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (78 bp):
ATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCGACCCCGT
TATTTTTGAGAGA
Found at i:147544 original size:158 final size:157
Alignment explanation
Indices: 147203--147564 Score: 405
Period size: 157 Copynumber: 2.3 Consensus size: 157
147193 CCGAGGGGAT
* * * * * * *
147203 ATACTCTAACCCCGGTTTTATCCCCAAAATATCGATTTTTCACAATCGGGGATACTCGAACCCTG
1 ATACTCCAACCTCGATTTTATCTCCAAAACATCGATTTTTCACAATCGAGGACACTCGAACCCTG
*
147268 TTATTATTGTGGAAATACTCCAACCCTGATTTTATCTTAAAACACTGATTCTTCACAATCGGGGA
66 TTATTATTGTGGAAATACTCCAACCCTGATTTTATCTTAAAACACTAATTCTTCACAATCGGGGA
* *
147333 TACTCTAGCCCCGTTATTTCTAAGGGG
131 TACTCGAGCCCCGTTATTTCTAAGAGG
* *
147360 ATACTCCAACCTCGGTTTTATCTCCAAAACATCGATTTTTCACAATCGAGGACACTCTAA-CCTC
1 ATACTCCAACCTCGATTTTATCTCCAAAACATCGATTTTTCACAATCGAGGACACTCGAACCCT-
*
147424 GTTATT-TT-TGAGAGAATACTCCAACCCTGATTTTAT-TTCCAAAACA-TCAATT-TTCCTCAA
65 GTTATTATTGTG-GA-AATACTCCAACCCTGATTTTATCTT--AAAACACT-AATTCTT-CACAA
* *
147484 TCGGGGATACTCCGA-CCCCGTTATTTTTGAGAGG
124 TCGGGGATACT-CGAGCCCCGTTATTTCTAAGAGG
** * * * * *
147518 ATACTGTAACCTTGATTTTATTTCCAAAGCACCGATTTTTCATAATC
1 ATACTCCAACCTCGATTTTATCTCCAAAACATCGATTTTTCACAATC
147565 ATGGATACTC
Statistics
Matches: 176, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
155 2 0.01
156 9 0.05
157 84 0.48
158 79 0.45
159 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (157 bp):
ATACTCCAACCTCGATTTTATCTCCAAAACATCGATTTTTCACAATCGAGGACACTCGAACCCTG
TTATTATTGTGGAAATACTCCAACCCTGATTTTATCTTAAAACACTAATTCTTCACAATCGGGGA
TACTCGAGCCCCGTTATTTCTAAGAGG
Found at i:147586 original size:51 final size:51
Alignment explanation
Indices: 147531--147628 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
147521 CTGTAACCTT
* * * *
147531 GATTTTATTTCCAAAGCACCGATTTTTCATAATCATG-GATACTCCAATCCC
1 GATTTTATTTCCAAAACACCAATTTTTCACAATC-GGAGATACTCCAATCCC
147582 GATTTTATTTCCAAAACACCAATTTTTCACAATCGGAGATACTCCAA
1 GATTTTATTTCCAAAACACCAATTTTTCACAATCGGAGATACTCCAA
147629 CCCTGTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (51 bp):
GATTTTATTTCCAAAACACCAATTTTTCACAATCGGAGATACTCCAATCCC
Found at i:148869 original size:40 final size:40
Alignment explanation
Indices: 148814--148895 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
148804 AACTACACAC
*
148814 ATTCAAATCCCAGACACACGACAAGAAAGCGAATGAGTTG
1 ATTCAAATCCCAGACACACGACAAGAAAGCGAACGAGTTG
*
148854 ATTCAAATCCTAGACACACGACAAGAAAGCGAACGAGTTG
1 ATTCAAATCCCAGACACACGACAAGAAAGCGAACGAGTTG
148894 AT
1 AT
148896 ACAAGAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.16
Consensus pattern (40 bp):
ATTCAAATCCCAGACACACGACAAGAAAGCGAACGAGTTG
Found at i:151849 original size:36 final size:36
Alignment explanation
Indices: 151802--151872 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
151792 TAAGCCATGC
*
151802 TTAGGTGATGATTTATGCTAAAGTGTAAAAACCAAG
1 TTAGGTGATGATTTATGCTAAAGCGTAAAAACCAAG
151838 TTAGGTGATGATTTATGCTAAAGCGTAAAAACCAA
1 TTAGGTGATGATTTATGCTAAAGCGTAAAAACCAA
151873 CTTATAACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (36 bp):
TTAGGTGATGATTTATGCTAAAGCGTAAAAACCAAG
Found at i:152710 original size:58 final size:58
Alignment explanation
Indices: 152566--152761 Score: 168
Period size: 58 Copynumber: 3.4 Consensus size: 58
152556 TTTTTGGCAC
* * * * * * *
152566 TTAAGTAATTTTTCATGACTTA-AGGA-CTTGAATGTAATTTTATAAATTTTGATGTTAT
1 TTAAGTCATTTTTCATGACTTAGA-GATTTTG-ATGCAATTTCATGAATTTAGATGTAAT
* * *
152624 TTAGGTTATTTTTCATGACTTAGGGATTTTGATGCAATTTCATGAATTTAGATGTAAT
1 TTAAGTCATTTTTCATGACTTAGAGATTTTGATGCAATTTCATGAATTTAGATGTAAT
* * * *
152682 TTAAGTCATTTTTCATGA-TCTAGAGATTTTTATGCAATTGCATGTATTATGGA-G-ATAT
1 TTAAGTCATTTTTCATGACT-TAGAGATTTTGATGCAATTTCATGAATT-TAGATGTA-AT
* *
152740 TTAGGTCATTTTCCATGACTTA
1 TTAAGTCATTTTTCATGACTTA
152762 AGAATTACTA
Statistics
Matches: 114, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
57 2 0.02
58 105 0.92
59 7 0.06
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.46
Consensus pattern (58 bp):
TTAAGTCATTTTTCATGACTTAGAGATTTTGATGCAATTTCATGAATTTAGATGTAAT
Found at i:155312 original size:16 final size:16
Alignment explanation
Indices: 155276--155312 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
155266 AGTAATTTTT
*
155276 GTTTGAAAAATCATGA
1 GTTTGAAAAATCAAGA
155292 GTTTGAAAAATCAAGA
1 GTTTGAAAAATCAAGA
*
155308 TTTTG
1 GTTTG
155313 GCACAAGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (16 bp):
GTTTGAAAAATCAAGA
Found at i:156105 original size:20 final size:19
Alignment explanation
Indices: 156052--156108 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
156042 TTGTATCGAT
*
156052 ACATTGTATCAATACATGT
1 ACATTGTATCAATACATGC
* **
156071 TCATTGTATTGATACATGC
1 ACATTGTATCAATACATGC
156090 ACAATTGTATCAATACATG
1 AC-ATTGTATCAATACATG
156109 AAACCGACAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (19 bp):
ACATTGTATCAATACATGC
Found at i:157747 original size:15 final size:15
Alignment explanation
Indices: 157727--157761 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
157717 AACCATCAAA
157727 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
157742 GATGATGATGATAAT
1 GATGATGAAGATAAT
157757 GATGA
1 GATGA
157762 AGTTGACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:159698 original size:33 final size:33
Alignment explanation
Indices: 159659--159723 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
159649 CGTTATAAGC
*
159659 AATGTATCGATACAATT-CATCATGTATCGATAT
1 AATGTATCGATAC-ATTGCACCATGTATCGATAT
*
159692 AATGTATCGATACATTGTACCATGTATCGATA
1 AATGTATCGATACATTGCACCATGTATCGATA
159724 CAAACAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (33 bp):
AATGTATCGATACATTGCACCATGTATCGATAT
Found at i:159806 original size:18 final size:18
Alignment explanation
Indices: 159783--159871 Score: 76
Period size: 18 Copynumber: 5.5 Consensus size: 18
159773 TCCATATATC
159783 GATACAATGAACATGTAT
1 GATACAATGAACATGTAT
159801 GATAC-----A-ATGTAT
1 GATACAATGAACATGTAT
159813 CGATACAATGAACATGTAT
1 -GATACAATGAACATGTAT
159832 GATAC-----A-ATGTAT
1 GATACAATGAACATGTAT
159844 CGATACAATGAACATGTAT
1 -GATACAATGAACATGTAT
159863 GATACAATG
1 GATACAATG
159872 TATCGATACA
Statistics
Matches: 57, Mismatches: 0, Indels: 28
0.67 0.00 0.33
Matches are distributed among these distances:
12 12 0.21
13 12 0.21
18 21 0.37
19 12 0.21
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (18 bp):
GATACAATGAACATGTAT
Found at i:159817 original size:31 final size:31
Alignment explanation
Indices: 159779--159882 Score: 208
Period size: 31 Copynumber: 3.4 Consensus size: 31
159769 ATTGTCCATA
159779 TATCGATACAATGAACATGTATGATACAATG
1 TATCGATACAATGAACATGTATGATACAATG
159810 TATCGATACAATGAACATGTATGATACAATG
1 TATCGATACAATGAACATGTATGATACAATG
159841 TATCGATACAATGAACATGTATGATACAATG
1 TATCGATACAATGAACATGTATGATACAATG
159872 TATCGATACAA
1 TATCGATACAA
159883 AGCATAATGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (31 bp):
TATCGATACAATGAACATGTATGATACAATG
Found at i:159882 original size:13 final size:11
Alignment explanation
Indices: 159789--159881 Score: 69
Period size: 12 Copynumber: 8.7 Consensus size: 11
159779 TATCGATACA
159789 ATGA-ACATGT
1 ATGATACATGT
159799 ATGATACAATGT
1 ATGATAC-ATGT
159811 ATCGATACA---
1 AT-GATACATGT
159820 ATGA-ACATGT
1 ATGATACATGT
159830 ATGATACAATGT
1 ATGATAC-ATGT
159842 ATCGATACA---
1 AT-GATACATGT
159851 ATGA-ACATGT
1 ATGATACATGT
159861 ATGATACAATGT
1 ATGATAC-ATGT
159873 ATCGATACA
1 AT-GATACA
159882 AAGCATAATG
Statistics
Matches: 68, Mismatches: 0, Indels: 28
0.71 0.00 0.29
Matches are distributed among these distances:
7 6 0.09
8 4 0.06
9 4 0.06
10 12 0.18
11 6 0.09
12 21 0.31
13 15 0.22
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (11 bp):
ATGATACATGT
Found at i:160488 original size:22 final size:22
Alignment explanation
Indices: 160463--160504 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
160453 AGATAAACAT
160463 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
160485 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
160505 TCTTAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:168694 original size:19 final size:19
Alignment explanation
Indices: 168650--168724 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
168640 CTGCCAATTT
* * *
168650 CATGTACCGATACAATTATC
1 CATGTATCGATACAATGA-A
168670 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
168689 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
168708 CATGTATCGATACAATG
1 CATGTATCGATACAATG
168725 TATCGATACA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 36 0.69
20 16 0.31
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:168727 original size:13 final size:13
Alignment explanation
Indices: 168709--168735 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
168699 TACAATGAAC
168709 ATGTATCGATACA
1 ATGTATCGATACA
168722 ATGTATCGATACA
1 ATGTATCGATACA
168735 A
1 A
168736 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:171259 original size:97 final size:97
Alignment explanation
Indices: 171002--171248 Score: 350
Period size: 97 Copynumber: 2.5 Consensus size: 97
170992 TTTTTGATTG
* *
171002 AAAAACGGGGTTGGAGTATCTCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
1 AAAAGCGGGGTTGGAGTATCTTCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
171067 AGTGAGAATAAAATTTAAACTTTGATGCATTT
66 AGTGAGAATAAAATTTAAACTTTGATGCATTT
* * * * * ** *
171099 AAAAGTGAGGTTGGAGTATCCTCTTGGAGGAATGGGGTTGAAGTGTCCTTGATGGTGACAATTTA
1 AAAAGCGGGGTTGGAGTATCTTCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
* **
171164 AGTGAGAATAAGATTTAAACTTTGATGTGTTT
66 AGTGAGAATAAAATTTAAACTTTGATGCATTT
** *
171196 AAAAGCGGGGTTGGAGTATCTTCTCGGAGGAATAAGGTTGGAGTATCCCCGAT
1 AAAAGCGGGGTTGGAGTATCTTCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
171249 AAATAAAATT
Statistics
Matches: 127, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
97 127 1.00
ACGTcount: A:0.29, C:0.11, G:0.30, T:0.30
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCTTCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
AGTGAGAATAAAATTTAAACTTTGATGCATTT
Found at i:172404 original size:2 final size:2
Alignment explanation
Indices: 172399--172435 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
172389 TTCGAGAGAA
172399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
172436 GACACATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.