Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 204 of 427
Found at i:57183626 original size:15 final size:15
Alignment explanation
Indices: 57183606--57183636 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57183596 TTTTTCCCTA
57183606 TATAATAATAATAAT
1 TATAATAATAATAAT
57183621 TATAATAATAATAAT
1 TATAATAATAATAAT
57183636 T
1 T
57183637 TTCATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATAATAATAATAAT
Found at i:57183643 original size:15 final size:15
Alignment explanation
Indices: 57183610--57183653 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
57183600 TCCCTATATA
* *
57183610 ATAATAATAATTATA
1 ATAATAATAATTTTC
57183625 ATAATAATAATTTTC
1 ATAATAATAATTTTC
57183640 ATAA-AA-AATTTTC
1 ATAATAATAATTTTC
57183653 A
1 A
57183654 AACATACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 8 0.30
14 2 0.07
15 17 0.63
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAATAATTTTC
Found at i:57183704 original size:19 final size:18
Alignment explanation
Indices: 57183667--57183710 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
57183657 ATACTTACAG
57183667 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
57183684 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
57183703 TACTAATT
1 TAATAATT
57183711 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:57185400 original size:47 final size:48
Alignment explanation
Indices: 57185285--57185409 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 48
57185275 ATATCTGTAA
**
57185285 GTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGTG
1 GTGCTAAGTGGATATACCACGGTTACACATATTGATACATGTAACGTG
* * *
57185333 GTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAACGTG
1 GTGCTAAGTGGATATACCACGGTTACACATATTGATACATGTAACGTG
* *
57185380 GTTCTAAGTGGATATACCACGGTTAAACAT
1 GTGCTAAGTGGATATACCACGGTTACACAT
57185410 GTAACGTGGT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 33 0.49
48 35 0.51
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (48 bp):
GTGCTAAGTGGATATACCACGGTTACACATATTGATACATGTAACGTG
Found at i:57185425 original size:38 final size:38
Alignment explanation
Indices: 57185373--57185449 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
57185363 ATTGATTCAT
*
57185373 TAACGTGGTTCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
57185411 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
57185449 T
1 T
57185450 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:57191348 original size:34 final size:35
Alignment explanation
Indices: 57191281--57191348 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
57191271 TATGGTACTA
* *
57191281 AATTGGGCTAAGGCCCACACTGTTACTGTTACTGT
1 AATTGGGCTAAGGCCCACACTGATACTGCTACTGT
* *
57191316 AATT-GGCTAAGGCCCACATTGATATTGCTACTG
1 AATTGGGCTAAGGCCCACACTGATACTGCTACTG
57191349 ATATGGGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 25 0.86
35 4 0.14
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (35 bp):
AATTGGGCTAAGGCCCACACTGATACTGCTACTGT
Found at i:57193013 original size:24 final size:24
Alignment explanation
Indices: 57192986--57193082 Score: 185
Period size: 24 Copynumber: 4.0 Consensus size: 24
57192976 GCTTATTATG
*
57192986 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57193010 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57193034 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57193058 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57193082 A
1 A
57193083 CTTTCTACCC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:57200804 original size:24 final size:24
Alignment explanation
Indices: 57200777--57200919 Score: 263
Period size: 24 Copynumber: 6.0 Consensus size: 24
57200767 GCTTATTATG
*
57200777 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57200801 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57200825 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57200849 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57200873 ATCG--CACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57200895 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
57200919 A
1 A
57200920 CTTTCTACCC
Statistics
Matches: 116, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
22 22 0.19
24 94 0.81
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:57205775 original size:16 final size:16
Alignment explanation
Indices: 57205756--57205786 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57205746 CTTCTTCACT
57205756 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57205772 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57205787 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:57205792 original size:20 final size:20
Alignment explanation
Indices: 57205753--57205792 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57205743 AAACTTCTTC
* *
57205753 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57205773 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57205793 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:57206168 original size:55 final size:53
Alignment explanation
Indices: 57205978--57206232 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
57205968 ACACGGGTAC
* * * * *
57205978 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
57206027 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
57206080 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
57206135 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
57206188 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
57206233 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 47 0.27
54 14 0.08
55 72 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:57206169 original size:108 final size:110
Alignment explanation
Indices: 57206025--57206225 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
57206015 ATCCTTTTGA
* *
57206025 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
57206088 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
57206133 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
57206198 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
57206226 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:57213575 original size:49 final size:50
Alignment explanation
Indices: 57213501--57213726 Score: 159
Period size: 49 Copynumber: 4.3 Consensus size: 50
57213491 ACACAAGTAC
* * *
57213501 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGATATCCTT-TTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACGTGATATCCTTCTTGAAA
* * *
57213550 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT-ATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACGTGATATCCTT--CTTGA--AA
* * * * * * *
57213603 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGTGACCTTTACCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTAC--GTGA--TAT-CCTTCTTGAAA
* ** *
57213658 CTTATCAATGCCATGTCTTGACATGGTCTTACACGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACGTGATATCCTT--CTT-GAAA
57213711 CCTTACCAATTGCCAT
1 -CTTACCAA-TGCCAT
57213727 ACCTTAGGAT
Statistics
Matches: 137, Mismatches: 24, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
49 39 0.28
50 4 0.03
51 4 0.03
52 3 0.02
53 35 0.26
54 7 0.05
55 38 0.28
56 1 0.01
57 2 0.01
58 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (50 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACGTGATATCCTTCTTGAAA
Found at i:57213630 original size:53 final size:54
Alignment explanation
Indices: 57213501--57213756 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 54
57213491 ACACAAGTAC
* * * * *
57213501 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGATATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
57213550 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
57213603 CTCACCAATGCCATGCCTTGGCATGGTCTTACAT-GTGA-CCTTTACCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGT-ATCC-TTGCCTTAT-GAAA
* * * * *
57213658 CTTATCAATGCCATGTCTTGACATGGTCTTACACGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
57213711 CCTTACCAATTGCCATACCTT-AGGATGGTCTTACATTGTATCCTTG
1 -CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTG
57213757 AACCCTAATG
Statistics
Matches: 167, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 4 0.02
53 46 0.28
54 11 0.07
55 65 0.39
56 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:57213700 original size:108 final size:110
Alignment explanation
Indices: 57213548--57213746 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 110
57213538 ATCCTTTTGA
* * *
57213548 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACACGATATCCTTGCCTTA-GAAACCTCACCAA
*
57213611 -TGCCATGCCTT-GGCATGGTCTTACATGTGACCTTTACCTTATAGT
65 TTGCCATACCTTAGG-ATGGTCTTACATGTGACCTTTACCTTATAGT
* * *
57213656 AACTTATCAATGCCATGTCTTGACATGGTCTTACACGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACACGATATCCTTGCCTTAGAAACCTCACCAAT
57213721 TGCCATACCTTAGGATGGTCTTACAT
66 TGCCATACCTTAGGATGGTCTTACAT
57213747 TGTATCCTTG
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
107 1 0.01
108 48 0.60
109 7 0.09
110 22 0.28
111 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACACGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATACCTTAGGATGGTCTTACATGTGACCTTTACCTTATAGT
Found at i:57216348 original size:48 final size:46
Alignment explanation
Indices: 57216261--57216379 Score: 122
Period size: 48 Copynumber: 2.6 Consensus size: 46
57216251 GTTTGCATAT
* * *
57216261 CGATGACATATCCCAGATATGGTCTTATACGAAGTCTCATATCAGTGC
1 CGATG-CATA-CCCAGACATGGTCTTATACGAAGCCTCATATCAATGC
*
57216309 CGATGCCATACCCCAGACATGGTCTTATACG-GGACCTCATATCAATGC
1 CGATG-CATA-CCCAGACATGGTCTTATACGAAG-CCTCATATCAATGC
57216357 C-ATG--T-CCCAGACATGGTCTTATA
1 CGATGCATACCCAGACATGGTCTTATA
57216380 TGAAATCACT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 18 0.28
44 1 0.02
47 4 0.06
48 41 0.64
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCATACCCAGACATGGTCTTATACGAAGCCTCATATCAATGC
Found at i:57216407 original size:90 final size:90
Alignment explanation
Indices: 57216256--57216473 Score: 220
Period size: 90 Copynumber: 2.4 Consensus size: 90
57216246 CATGGGTTTG
* * * * * * * *
57216256 CATATCGATGACATATCCCAGATATGGTCTTATACGAAGTCTCATATCAGTGCCGATGCCATACC
1 CATATCGATGCCATGTCCCAGACATGGTCTTATACGAAATCACATAACAGTGCCAAAGCCATACC
*
57216321 CCAGACATGGTCTTATACGGGACCT
66 CCAGACATGGTCTTATACGGGACCA
* * * * *
57216346 CATATCAATGCCATGTCCCAGACATGGTCTTATATGAAATCACTTAACATTGCCAAAGCCATATC
1 CATATCGATGCCATGTCCCAGACATGGTCTTATACGAAATCACATAACAGTGCCAAAGCCATACC
* * * *
57216411 CTAGATATGTTCTTATACGGGATCA
66 CCAGACATGGTCTTATACGGGACCA
57216436 CATATTGGTGTCGATGCCATGTCCCAGACATGGTCTTA
1 CATA------TCGATGCCATGTCCCAGACATGGTCTTA
57216474 CACAAGCACA
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
90 76 0.74
96 27 0.26
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (90 bp):
CATATCGATGCCATGTCCCAGACATGGTCTTATACGAAATCACATAACAGTGCCAAAGCCATACC
CCAGACATGGTCTTATACGGGACCA
Found at i:57219697 original size:26 final size:26
Alignment explanation
Indices: 57219659--57219711 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
57219649 TCTCAAAGAA
*
57219659 AAGAAATCCAGAAGAAAATGCCATTC
1 AAGAAATCCAGAAGAAAATACCATTC
*
57219685 AAGAAATCTAGAAGAAAATACCATTC
1 AAGAAATCCAGAAGAAAATACCATTC
57219711 A
1 A
57219712 GATTCGCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (26 bp):
AAGAAATCCAGAAGAAAATACCATTC
Found at i:57223206 original size:48 final size:49
Alignment explanation
Indices: 57223154--57223278 Score: 146
Period size: 48 Copynumber: 2.6 Consensus size: 49
57223144 TATTGGTTCT
* *
57223154 GATGCCATGTCCCAGACATGGTCTTAGACTAGCACACAT-AC-GAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATCTCAG-ACACC
* * * * * **
57223202 GATGCCATTTCCCAGACATGGCCTTACACTGGCTCTCATCTCAGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATCTCAGACACC
57223251 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
57223279 TGGGATCTCG
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 33 0.52
49 30 0.47
50 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATCTCAGACACC
Found at i:57226085 original size:16 final size:16
Alignment explanation
Indices: 57226064--57226120 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
57226054 AACGGCAAAA
*
57226064 GCTGAAATGCCGAAAT
1 GCTGAAAAGCCGAAAT
**
57226080 GCTGAAAAGCTAAAAT
1 GCTGAAAAGCCGAAAT
* *
57226096 GCCGAAAAGTCGAAAT
1 GCTGAAAAGCCGAAAT
*
57226112 GCTAAAAAG
1 GCTGAAAAG
57226121 TCAAAATTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.16
Consensus pattern (16 bp):
GCTGAAAAGCCGAAAT
Found at i:57226110 original size:24 final size:24
Alignment explanation
Indices: 57226060--57226118 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
57226050 ATGAAACGGC
* *
57226060 AAAAGCTGAAATGCCGAAATGCTG
1 AAAAGCTAAAATGCCGAAAAGCTG
57226084 AAAAGCTAAAATGCCGAAAAG-TCG
1 AAAAGCTAAAATGCCGAAAAGCT-G
*
57226108 AAATGCTAAAA
1 AAAAGCTAAAA
57226119 AGTCAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.49, C:0.15, G:0.20, T:0.15
Consensus pattern (24 bp):
AAAAGCTAAAATGCCGAAAAGCTG
Found at i:57226392 original size:28 final size:28
Alignment explanation
Indices: 57226360--57226460 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
57226350 TTTTGCCTAA
57226360 TGGGCCATATGAATGTGAATTGGGCCAG
1 TGGGCCATATGAATGTGAATTGGGCCAG
* * *
57226388 TGGGCCATAAGAATATGAACTGGGCCAG
1 TGGGCCATATGAATGTGAATTGGGCCAG
* * * *
57226416 ATGGGGCATTTGGATGAG-ATTGGGCCTAG
1 -TGGGCCATATGAATGTGAATTGGGCC-AG
*
57226445 TGGGCCATATGCATGT
1 TGGGCCATATGAATGT
57226461 ATGTAGGGGT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
28 44 0.77
29 13 0.23
ACGTcount: A:0.25, C:0.15, G:0.36, T:0.25
Consensus pattern (28 bp):
TGGGCCATATGAATGTGAATTGGGCCAG
Found at i:57237316 original size:40 final size:40
Alignment explanation
Indices: 57237251--57237494 Score: 276
Period size: 40 Copynumber: 6.1 Consensus size: 40
57237241 CGGAATACAA
* ** * * *
57237251 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
57237291 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
57237331 CCGGATATAACAACTTGCACAAATGCCTTTGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
57237371 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * * *
57237411 CCGAATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
* ** * * *
57237451 CCAGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
57237491 CCGG
1 CCGG
57237495 GTATCATTCA
Statistics
Matches: 176, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 175 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:57237649 original size:64 final size:64
Alignment explanation
Indices: 57237581--57237769 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
57237571 GAACACAAAC
57237581 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
57237645 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
57237702 AC
63 AT
57237704 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
57237768 AT
1 AT
57237770 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:57237682 original size:123 final size:123
Alignment explanation
Indices: 57237463--57237924 Score: 825
Period size: 123 Copynumber: 3.8 Consensus size: 123
57237453 AGATATAATT
* * * * * * *
57237463 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
57237528 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
57237586 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
57237651 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
57237709 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
57237774 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
* *
57237832 ACTAGCATAATTGCCTTCGGGACTTAGCCCGTGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
57237897 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
57237925 CACATGATTC
Statistics
Matches: 329, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 329 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:57243016 original size:16 final size:16
Alignment explanation
Indices: 57242995--57243037 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
57242985 ATGAAACAGC
*
57242995 AAAAGCCGAAATGTCG
1 AAAAGCCGAAAAGTCG
* *
57243011 AAAAGCTGAAAAGTTG
1 AAAAGCCGAAAAGTCG
*
57243027 AAATGCCGAAA
1 AAAAGCCGAAA
57243038 GCCAAAAGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.23, T:0.14
Consensus pattern (16 bp):
AAAAGCCGAAAAGTCG
Found at i:57243300 original size:29 final size:29
Alignment explanation
Indices: 57243267--57243378 Score: 93
Period size: 29 Copynumber: 3.9 Consensus size: 29
57243257 ATAATATGAT
57243267 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * *
57243296 TTGGGCCTAGTGGGCAATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * * * *
57243325 CTCGGCC-AGATGGGGCATTTGGATGAG-A
1 TTGGGCCTA-ATGGGCCATATGAATGTGAA
* *
57243353 TTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
57243379 ATGTAGGGGT
Statistics
Matches: 60, Mismatches: 21, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
28 19 0.32
29 41 0.68
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:57244349 original size:87 final size:87
Alignment explanation
Indices: 57244203--57244382 Score: 333
Period size: 87 Copynumber: 2.1 Consensus size: 87
57244193 TTGTAATAAG
*
57244203 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTTATTGTAATTACGAGAAGTTGAACT
1 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
57244268 TGGGATTCTTAAATTATAGTAT
66 TGGGATTCTTAAATTATAGTAT
*
57244290 GTTTTCATTATTCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
1 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
*
57244355 TGGGATTCTTAAATTATTGTAT
66 TGGGATTCTTAAATTATAGTAT
57244377 GTTTTC
1 GTTTTC
57244383 TACTTTTCCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (87 bp):
GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
TGGGATTCTTAAATTATAGTAT
Found at i:57249387 original size:51 final size:51
Alignment explanation
Indices: 57249306--57249500 Score: 300
Period size: 51 Copynumber: 3.8 Consensus size: 51
57249296 ATACATAGTC
* ** * *
57249306 GCCTTCACATAGTACCACCCTTGTACCCAAAGCTATTTTATTCTCAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
57249357 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
* *
57249408 GCTTTCACATAGTACCACACCTGTGTCCAAAGCTATTATATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
* * *
57249459 GCCTTCACATAGTACCACACTTATGTCTAAAGCTATTTTATT
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATT
57249501 TCTAAGGTTC
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 132 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
Found at i:57249574 original size:24 final size:24
Alignment explanation
Indices: 57249545--57249636 Score: 121
Period size: 24 Copynumber: 3.7 Consensus size: 24
57249535 CAATGCAATA
57249545 GACTTATTTCACTTAGATGCCATG
1 GACTTATTTCACTTAGATGCCATG
*
57249569 GGCTTATTTCACTTAGCACATTGCCATG
1 GACTTATTTCACTTAG---A-TGCCATG
57249597 GACTTATTTCACTTAGATGCCATG
1 GACTTATTTCACTTAGATGCCATG
* *
57249621 GTCTAATTTCACTTAG
1 GACTTATTTCACTTAG
57249637 CACAATGTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
24 36 0.60
25 1 0.02
27 1 0.02
28 22 0.37
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (24 bp):
GACTTATTTCACTTAGATGCCATG
Found at i:57249586 original size:52 final size:52
Alignment explanation
Indices: 57249525--57249643 Score: 184
Period size: 52 Copynumber: 2.3 Consensus size: 52
57249515 AGGAAATTTC
* *
57249525 TCACCTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTTATT
1 TCACTTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTAATT
* * * *
57249577 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTAATT
1 TCACTTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTAATT
57249629 TCACTTAGCACAATG
1 TCACTTAGCACAATG
57249644 TCATATCCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (52 bp):
TCACTTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTAATT
Found at i:57249602 original size:28 final size:27
Alignment explanation
Indices: 57249525--57249640 Score: 118
Period size: 24 Copynumber: 4.4 Consensus size: 27
57249515 AGGAAATTTC
* * *
57249525 TCACCTAGCACAATGCAATAGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
57249553 TCACTTAG---ATGCCATGGGCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
57249577 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
57249605 TCACTTAG---ATGCCATGGTCTAATT
1 TCACTTAGCACATGCCATGGACTTATT
57249629 TCACTTAGCACA
1 TCACTTAGCACA
57249641 ATGTCATATC
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
24 42 0.57
25 1 0.01
27 2 0.03
28 29 0.39
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:57253093 original size:37 final size:37
Alignment explanation
Indices: 57253035--57253253 Score: 393
Period size: 37 Copynumber: 5.9 Consensus size: 37
57253025 GCTCAGATGA
* * *
57253035 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
57253072 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
57253109 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
57253146 AATCTCCACACGTAGTCATCGGGTCTTACCCAGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
57253183 AATCTCCACATGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
57253220 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
57253254 ATATATTTCC
Statistics
Matches: 175, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 175 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:57253452 original size:48 final size:48
Alignment explanation
Indices: 57253394--57254227 Score: 1353
Period size: 48 Copynumber: 17.0 Consensus size: 48
57253384 ATATACACAC
* *
57253394 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57253442 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253490 ATCTTATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253538 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253588 ATCTTATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253636 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57253686 ATCTCATACATATTTCACATTAGTCATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253734 ATCTCATATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253786 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253834 ATCTCATATATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATA--CATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253886 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57253936 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253984 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57254034 ACCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57254082 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57254130 ATCTCATACATAATTCACATTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57254178 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACAACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57254226 AT
1 AT
57254228 ATTTATCTTG
Statistics
Matches: 740, Mismatches: 32, Indels: 28
0.93 0.04 0.04
Matches are distributed among these distances:
48 460 0.62
50 187 0.25
52 93 0.13
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:57253553 original size:146 final size:146
Alignment explanation
Indices: 57253403--57254227 Score: 1388
Period size: 146 Copynumber: 5.6 Consensus size: 146
57253393 CATCTCCTAC
*
57253403 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
57253468 TTCGGCTTTACCACATATACATATCTTATACATATTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
57253533 TACATATCTCATATAT
131 TACATATCTCATATAT
*
57253549 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
57253614 TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACA
66 TTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACA
*
57253679 TATACATATCTC--ATAC
129 TATACATATCTCATATAT
* * *
57253695 ATATTTCACATTAGTCATTCGGTTTTACCACATATACATATCTCATATATATATATTTCACATTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTA
*
57253760 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCA
62 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
57253825 CATATACATATCTCATATATGT
127 CATATACATATCTCATATA--T
*
57253847 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGC
57253912 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
64 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
57253977 TATACATATCTCATATAT
129 TATACATATCTCATATAT
*
57253995 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
57254060 TTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
*
57254125 TACATATCTCATACAT
131 TACATATCTCATATAT
*
57254141 A-A-TTCACATTAGCCATTCGGCTTTATCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
57254204 TTCAGCTTTACAACATATACATAT
66 TTCGGCTTTACCACATATACATAT
57254228 ATTTATCTTG
Statistics
Matches: 647, Mismatches: 22, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
144 82 0.13
145 1 0.00
146 233 0.36
148 137 0.21
150 152 0.23
152 42 0.06
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (146 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
TACATATCTCATATAT
Found at i:57253579 original size:98 final size:98
Alignment explanation
Indices: 57253394--57254227 Score: 1378
Period size: 98 Copynumber: 8.5 Consensus size: 98
57253384 ATATACACAC
* * *
57253394 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
57253457 CACATTAGCCATTCGGCTTTACCACATATACAT
66 CACATTAGCCATTCGGCTTTACCACATATACAT
*
57253490 ATCTTATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
57253555 CACATTAGCCATTCGGCTTTACCACATATACAT
66 CACATTAGCCATTCGGCTTTACCACATATACAT
*
57253588 ATCTTATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
57253653 CACATTAGCCATTCGGCTTTACCACATATACAT
66 CACATTAGCCATTCGGCTTTACCACATATACAT
* *
57253686 ATCTCATACATATTTCACATTAGTCATTCGGTTTTACCACATATACATATCTCATATATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATATAT
57253751 TTCACATTAGCCATTCGGCTTTACCACATATACAT
64 TTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57253786 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATATATGTATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA--TATAT
57253851 TTCACATTAGCCATTCGGCTTTACCACATATACAT
64 TTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57253886 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATAT
57253949 TTCACATTAGCCATTCGGCTTTACCACATATACAT
64 TTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
57253984 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTC--ATACATAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATAT
*
57254047 TTCACATTAGCCATTCAGCTTTACCACATATACAT
64 TTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57254082 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA-A-TT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
*
57254145 CACATTAGCCATTCGGCTTTATCACATATACAT
66 CACATTAGCCATTCGGCTTTACCACATATACAT
* *
57254178 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACAACATATACATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
57254228 ATTTATCTTG
Statistics
Matches: 705, Mismatches: 23, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
96 177 0.25
97 1 0.00
98 338 0.48
100 143 0.20
102 46 0.07
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (98 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
CACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:57255423 original size:2 final size:2
Alignment explanation
Indices: 57255390--57255414 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57255380 TACATAAGGC
57255390 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 A
57255415 CCTATATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57260100 original size:37 final size:37
Alignment explanation
Indices: 57260045--57260128 Score: 134
Period size: 37 Copynumber: 2.2 Consensus size: 37
57260035 GAAGTCTTAG
*
57260045 CCGGGCATAATCTCCACACGTAGTCATCGGGTCGT-AC
1 CCGGACATAATCTCCACACGTAGTCATCGGGTC-TCAC
57260082 CCGGACATAATCTCCACACGTAGTCATCGGGTCTCAC
1 CCGGACATAATCTCCACACGTAGTCATCGGGTCTCAC
57260119 CCGGAACATA
1 CCGG-ACATA
57260129 TTTCCAAGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 38 0.86
38 5 0.11
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.20
Consensus pattern (37 bp):
CCGGACATAATCTCCACACGTAGTCATCGGGTCTCAC
Found at i:57260243 original size:49 final size:49
Alignment explanation
Indices: 57260182--57260386 Score: 374
Period size: 49 Copynumber: 4.2 Consensus size: 49
57260172 CATTAGCCAT
* *
57260182 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
57260231 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
57260280 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
57260329 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
57260378 ATATATACA
1 ATATATACA
57260387 TCTCATACAT
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 152 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.30
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:57264762 original size:51 final size:51
Alignment explanation
Indices: 57264685--57264832 Score: 244
Period size: 51 Copynumber: 2.9 Consensus size: 51
57264675 CAGATACACG
*
57264685 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GCCCAAAGCTATTTTATTCACAAA
* *
57264736 GTGGCATTCACATAGTACCACACTTGTGCCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTCACAAA
*
57264787 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTC
57264833 CTAAGGTTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 89 0.99
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTCACAAA
Found at i:57264903 original size:24 final size:24
Alignment explanation
Indices: 57264868--57264939 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
57264858 ACTTAGCACA
57264868 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* *
57264892 ATGCCATAGACTTATTTTACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* *
57264916 ATGCCACGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
57264940 CACAATGTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:57269884 original size:15 final size:14
Alignment explanation
Indices: 57269868--57269911 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
57269858 CTATTTGAAT
57269868 TTTCTTTTCAAGAA
1 TTTCTTTTCAAGAA
*
57269882 TTTCTCTT-AAG--
1 TTTCTTTTCAAGAA
57269893 TTTCTTTTCAAGAA
1 TTTCTTTTCAAGAA
57269907 TTTCT
1 TTTCT
57269912 CTTGAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 7 0.28
12 3 0.12
13 3 0.12
14 12 0.48
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.55
Consensus pattern (14 bp):
TTTCTTTTCAAGAA
Found at i:57269900 original size:25 final size:25
Alignment explanation
Indices: 57269868--57269925 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
57269858 CTATTTGAAT
57269868 TTTCTTTTCAAGAATTTCTCTTAAG
1 TTTCTTTTCAAGAATTTCTCTTAAG
*
57269893 TTTCTTTTCAAGAATTTCTCTTGAG
1 TTTCTTTTCAAGAATTTCTCTTAAG
57269918 TTTCTTTT
1 TTTCTTTT
57269926 AGAAGAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.57
Consensus pattern (25 bp):
TTTCTTTTCAAGAATTTCTCTTAAG
Found at i:57276518 original size:48 final size:47
Alignment explanation
Indices: 57276445--57276759 Score: 298
Period size: 48 Copynumber: 6.6 Consensus size: 47
57276435 TAAAGTACCA
* * *
57276445 ATGCCATGTCCCCGACATGGTCTTACATGAATCCACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACATGAA-CCATATATCATCGCCG
* * * * **
57276493 ATGCCATGTCCCAAACATGGCCTTACACTG-GCACACATATCATTACCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGAAC-CATATATCATCGCCG
* *
57276541 ATTCCATGTCCCAGACATGGTCTTACATAGGAA-CATATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACAT--GAACCATATATCATCGCCG
* * * *
57276589 ATGCCATATCCCAGACATGGTCTTACACAGGTA-CATACATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTT--ACATGAACCATATATCATCGCCG
* * * * * **
57276637 ATGCCATGTCCAAGACTTGGTCTTACA-CAGGCACAAATATCATTACCG
1 ATGCCATGTCCCAGACATGGTCTTACATGA-AC-CATATATCATCGCCG
57276685 ATGCCATGTCCCAGACATGGTCTTACATAGGAA-CATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACAT--GAACCATATATCATCGCCG
57276733 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
57276760 CGGAATCTTA
Statistics
Matches: 216, Mismatches: 38, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
46 3 0.01
47 2 0.01
48 204 0.94
49 3 0.01
50 3 0.01
51 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAACCATATATCATCGCCG
Found at i:57276614 original size:96 final size:96
Alignment explanation
Indices: 57276445--57276759 Score: 393
Period size: 96 Copynumber: 3.3 Consensus size: 96
57276435 TAAAGTACCA
* * *
57276445 ATGCCATGTCCCCGACATGGTCTTACAT--GAATCCACATATCATCGCTGATGCCATGTCCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACATAGGAA--CAAATATCATCGCTGATGCCATGTCCCAGA
* * * **
57276508 CATGGCCTTACACTGGCACACATATCATTACCG
64 CATGGTCTTACACTGGAACATATATCATCGCCG
* * *
57276541 ATTCCATGTCCCAGACATGGTCTTACATAGGAACATATATCATCGCTGATGCCATATCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATAGGAACAAATATCATCGCTGATGCCATGTCCCAGACA
* * *
57276606 TGGTCTTACACAGGTACATACATCATCGCCG
66 TGGTCTTACACTGGAACATATATCATCGCCG
* * * * ** *
57276637 ATGCCATGTCCAAGACTTGGTCTTACACAGGCACAAATATCATTACCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATAGGAACAAATATCATCGCTGATGCCATGTCCCAGACA
57276702 TGGTCTTACA-TAGGAACATATATCATCGCCG
66 TGGTCTTACACT-GGAACATATATCATCGCCG
57276733 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
57276760 CGGAATCTTA
Statistics
Matches: 189, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
96 186 0.98
98 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACATAGGAACAAATATCATCGCTGATGCCATGTCCCAGACA
TGGTCTTACACTGGAACATATATCATCGCCG
Found at i:57276705 original size:144 final size:144
Alignment explanation
Indices: 57276483--57276760 Score: 468
Period size: 144 Copynumber: 1.9 Consensus size: 144
57276473 GAATCCACAT
* * * *
57276483 ATCATCGCTGATGCCATGTCCCAAACATGGCCTTACACTGGCACACATATCATTACCGATTCCAT
1 ATCATCGCCGATGCCATGTCCCAAACATGGCCTTACACAGGCACAAATATCATTACCGATGCCAT
*
57276548 GTCCCAGACATGGTCTTACATAGGAACATATATCATCGCTGATGCCATATCCCAGACATGGTCTT
66 GTCCCAGACATGGTCTTACATAGGAACATATATCATCGCCGATGCCATATCCCAGACATGGTCTT
57276613 ACACAGGTACATAC
131 ACACAGGTACATAC
* *
57276627 ATCATCGCCGATGCCATGT-CCAAGACTTGGTCTTACACAGGCACAAATATCATTACCGATGCCA
1 ATCATCGCCGATGCCATGTCCCAA-ACATGGCCTTACACAGGCACAAATATCATTACCGATGCCA
*
57276691 TGTCCCAGACATGGTCTTACATAGGAACATATATCATCGCCGATGCCATGTCCCAGACATGGTCT
65 TGTCCCAGACATGGTCTTACATAGGAACATATATCATCGCCGATGCCATATCCCAGACATGGTCT
57276756 TACAC
130 TACAC
57276761 GGAATCTTAT
Statistics
Matches: 125, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
143 4 0.03
144 121 0.97
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (144 bp):
ATCATCGCCGATGCCATGTCCCAAACATGGCCTTACACAGGCACAAATATCATTACCGATGCCAT
GTCCCAGACATGGTCTTACATAGGAACATATATCATCGCCGATGCCATATCCCAGACATGGTCTT
ACACAGGTACATAC
Found at i:57279843 original size:14 final size:15
Alignment explanation
Indices: 57279806--57279847 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
57279796 AAATATGAAC
57279806 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
57279822 TATA-ATGTGATA-G
1 TATATATGTGAAATG
57279835 TATATATGTGAAA
1 TATATATGTGAAA
57279848 GTCGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:57280030 original size:43 final size:42
Alignment explanation
Indices: 57279983--57280139 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
57279973 TATGTGTTCT
57279983 CGTGTAAGACCACATCTGGGACATTGGCATCAATATTTGATTA
1 CGTGTAAGACCACATCTGGGACATTGGCATC-ATATTTGATTA
** * * * *
57280026 CGTGTAAGACCATGTCCGGAACATCGGCATCGTATTTGATT-
1 CGTGTAAGACCACATCTGGGACATTGGCATCATATTTGATTA
* * * *
57280067 CGTGTAAGACC-CTATCTGGGACAATAGCATCGATATGTGATAA
1 CGTGTAAGACCAC-ATCTGGGACATTGGCATC-ATATTTGATTA
* * * *
57280110 CATGTAAGACCACGTCTAGGATATTGGCAT
1 CGTGTAAGACCACATCTGGGACATTGGCAT
57280140 TGTATGATAT
Statistics
Matches: 88, Mismatches: 22, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
41 23 0.26
42 16 0.18
43 48 0.55
44 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCACATCTGGGACATTGGCATCATATTTGATTA
Found at i:57280097 original size:41 final size:41
Alignment explanation
Indices: 57279982--57280107 Score: 121
Period size: 41 Copynumber: 3.0 Consensus size: 41
57279972 ATATGTGTTC
* *
57279982 TCGTGTAAGACCAC-ATCTGGGACATTGGCATCAATATTTGAT
1 TCGTGTAAGACC-CTATCTGGGACAATGGCATC-GTATTTGAT
* * * *
57280024 TACGTGTAAGACCATGTCCGGAAC-ATCGGCATCGTATTTGAT
1 T-CGTGTAAGACCCTATCTGGGACAAT-GGCATCGTATTTGAT
* *
57280066 TCGTGTAAGACCCTATCTGGGACAATAGCATCGATATGTGAT
1 TCGTGTAAGACCCTATCTGGGACAATGGCATCG-TATTTGAT
57280108 AACATGTAAG
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
41 24 0.36
42 20 0.30
43 23 0.34
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCCTATCTGGGACAATGGCATCGTATTTGAT
Found at i:57287050 original size:22 final size:22
Alignment explanation
Indices: 57287022--57287075 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
57287012 TAAAAACGGT
**
57287022 GCTTGGATTCACTTACTATGGA
1 GCTTGGAAGCACTTACTATGGA
* *
57287044 GCTTGGAAGCTCTTCCTATGGA
1 GCTTGGAAGCACTTACTATGGA
57287066 GCTTGGAAGC
1 GCTTGGAAGC
57287076 TTGAAACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (22 bp):
GCTTGGAAGCACTTACTATGGA
Found at i:57296291 original size:14 final size:13
Alignment explanation
Indices: 57296271--57296302 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
57296261 TATGTTTGAC
57296271 TTGTTCTTAATTA
1 TTGTTCTTAATTA
57296284 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
57296298 TTGTT
1 TTGTT
57296303 TTGATATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:57307327 original size:12 final size:12
Alignment explanation
Indices: 57307310--57307335 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57307300 CTACCTTTTA
57307310 ATGGTGAAATTG
1 ATGGTGAAATTG
57307322 ATGGTGAAATTG
1 ATGGTGAAATTG
57307334 AT
1 AT
57307336 CGCACAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (12 bp):
ATGGTGAAATTG
Found at i:57313251 original size:43 final size:43
Alignment explanation
Indices: 57313203--57313359 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
57313193 ATATTGTACA
* * *
57313203 ATGCCAATGTCCCAAACGTGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
57313246 ATGCCACTATCCCAGACAG-GGTCTTACACG-AATCAAATAT-G
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* *
57313287 ATGTCC-ATGTCCTAGACATGGTCTTACACGTAATCACATATCG
1 ATG-CCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
57313330 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
57313360 AGAACACATA
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 23 0.24
42 21 0.22
43 49 0.52
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:57316693 original size:14 final size:13
Alignment explanation
Indices: 57316676--57316748 Score: 50
Period size: 14 Copynumber: 5.8 Consensus size: 13
57316666 TTTATATGCT
57316676 TTATCATATATATA
1 TTATCAT-TATATA
57316690 TTAT-ATTAT-T-
1 TTATCATTATATA
*
57316700 TTA--ATATATATT
1 TTATCAT-TATATA
57316712 TTATTCATTATATCA
1 TTA-TCATTATAT-A
*
57316727 TTTTCATTATATA
1 TTATCATTATATA
57316740 TTAT-ATTAT
1 TTATCATTAT
57316749 TTTATTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
9 2 0.04
10 6 0.12
11 2 0.04
12 11 0.22
13 6 0.12
14 18 0.37
15 4 0.08
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATCATTATATA
Found at i:57316721 original size:29 final size:29
Alignment explanation
Indices: 57316682--57316758 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
57316672 TGCTTTATCA
57316682 TATATATATTATATTATTTT-AATATATAT
1 TATAT-TATTATATTATTTTCAATATATAT
* * *
57316711 TTTATTCATTATATCATTTTCATTATATAT
1 TATATT-ATTATATTATTTTCAATATATAT
*
57316741 TATATTATTTTATTATTT
1 TATATTATTATATTATTT
57316759 ATTTATTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.03
29 26 0.65
30 13 0.32
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (29 bp):
TATATTATTATATTATTTTCAATATATAT
Found at i:57316740 original size:30 final size:29
Alignment explanation
Indices: 57316689--57316746 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
57316679 TCATATATAT
* *
57316689 ATTATATTATTTTAATATATATTTTATTC
1 ATTATATCATTTTAATATATATTATATTC
*
57316718 ATTATATCATTTTCATTATATATTATATT
1 ATTATATCATTTT-AATATATATTATATT
57316747 ATTTTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATATCATTTTAATATATATTATATTC
Found at i:57316764 original size:21 final size:21
Alignment explanation
Indices: 57316718--57316761 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57316708 TATTTTATTC
57316718 ATTATATCATTTTCATTATAT
1 ATTATATCATTTTCATTATAT
* *
57316739 ATTATATTATTTT-ATTATTT
1 ATTATATCATTTTCATTATAT
57316759 ATT
1 ATT
57316762 TATTACTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTATATCATTTTCATTATAT
Found at i:57329764 original size:40 final size:40
Alignment explanation
Indices: 57329748--57329945 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
57329738 AGCCCGGTTA
*
57329748 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
57329788 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
57329828 TAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
57329868 TAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGG-TT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * * *
57329907 ATAGTCACTTAGCACAAA-GCCTTCGGAACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGATCTTAGTCCGGA
57329946 CATCATTCGA
Statistics
Matches: 144, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
39 5 0.03
40 131 0.91
41 8 0.06
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:57332213 original size:44 final size:44
Alignment explanation
Indices: 57332156--57332276 Score: 163
Period size: 44 Copynumber: 2.8 Consensus size: 44
57332146 ACTGATAGTA
** *
57332156 GATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGATGACAG
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC-G
* *
57332201 G-TTTGGCATCTCTATATTGACAGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACG
* *
57332244 GATTTGGCGTCTTTGTATTGACAGAGAGTAGAT
1 GATTTGGCGTCTCTGTATTGACAGAGAGCAGAT
57332277 TTCTGTATTG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
43 2 0.03
44 63 0.95
45 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACG
Found at i:57332303 original size:67 final size:66
Alignment explanation
Indices: 57332215--57332342 Score: 211
Period size: 66 Copynumber: 1.9 Consensus size: 66
57332205 GGCATCTCTA
* * *
57332215 TATTGACAGAGAGCAGATCGAAGATAACGGATTTGGCGTCTTTGTATTGACAGAGAGTAGATTTC
1 TATTGACAGAGAGCAGATCGAAGATAACAG-TTTGGCGTCTCTGTATTGACAGAGAGCAGATTTC
57332280 TG
65 TG
*
57332282 TATTGACAGAGAGTAGATCGAAGATAACAGTTTGGCGTCTCTGTATTGACAGAGAGCAGAT
1 TATTGACAGAGAGCAGATCGAAGATAACAGTTTGGCGTCTCTGTATTGACAGAGAGCAGAT
57332343 CGAAGATGAC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
66 29 0.51
67 28 0.49
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (66 bp):
TATTGACAGAGAGCAGATCGAAGATAACAGTTTGGCGTCTCTGTATTGACAGAGAGCAGATTTCT
G
Found at i:57332361 original size:110 final size:111
Alignment explanation
Indices: 57332167--57332386 Score: 316
Period size: 110 Copynumber: 2.0 Consensus size: 111
57332157 ATTTGGCGTC
** *
57332167 TCTGTATTGTTAGAGAGCAGATCGAAGATGACAGGTTTGGCATCTCTATATTGACAGAGAGCAGA
1 TCTGTATTGACAGAGAGCAGATCGAAGATAACAGGTTTGGCATCTCTATATTGACAGAGAGCAGA
* * * * *
57332232 TCGAAGATAACGGATTTGGCGTCTTTGTATTGACAGAGAGTAGATT
66 TCGAAGATAACAGATTTGGCATCTCTGTATTAACAGAGAGCAGATT
* * *
57332278 TCTGTATTGACAGAGAGTAGATCGAAGATAACA-GTTTGGCGTCTCTGTATTGACAGAGAGCAGA
1 TCTGTATTGACAGAGAGCAGATCGAAGATAACAGGTTTGGCATCTCTATATTGACAGAGAGCAGA
* *
57332342 TCGAAGATGACAGATTTGGCATCTCTGTATTAATAGAGAGCAGAT
66 TCGAAGATAACAGATTTGGCATCTCTGTATTAACAGAGAGCAGAT
57332387 CGAAGATGAC
Statistics
Matches: 96, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
110 67 0.70
111 29 0.30
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (111 bp):
TCTGTATTGACAGAGAGCAGATCGAAGATAACAGGTTTGGCATCTCTATATTGACAGAGAGCAGA
TCGAAGATAACAGATTTGGCATCTCTGTATTAACAGAGAGCAGATT
Found at i:57332380 original size:44 final size:44
Alignment explanation
Indices: 57332278--57332544 Score: 348
Period size: 44 Copynumber: 6.1 Consensus size: 44
57332268 AGAGTAGATT
* * * *
57332278 TCTGTATTGACAGAGAGTAGATCGAAGATAACAG-TTTGGCGTC
1 TCTGTATTGATAGAGAGCAGATCGAAGATGACAGATTTGGCATC
*
57332321 TCTGTATTGACAGAGAGCAGATCGAAGATGACAGATTTGGCATC
1 TCTGTATTGATAGAGAGCAGATCGAAGATGACAGATTTGGCATC
* *
57332365 TCTGTATTAATAGAGAGCAGATCGAAGATGACAGATTTGGCGTC
1 TCTGTATTGATAGAGAGCAGATCGAAGATGACAGATTTGGCATC
* * *
57332409 TCTGTATTGATAGAGAGTAGATCGAAGA-GACAGATTTGGCGTT
1 TCTGTATTGATAGAGAGCAGATCGAAGATGACAGATTTGGCATC
* *
57332452 TCTGTATTG-TCAGAGAGCAGATCAAAGATAGCCA-ATTTGGCATC
1 TCTGTATTGAT-AGAGAGCAGATCGAAGAT-GACAGATTTGGCATC
57332496 TCTGTATTG-TCAGAGAGCAGATCGAAGAT-AGCAGATTTGGCATC
1 TCTGTATTGAT-AGAGAGCAGATCGAAGATGA-CAGATTTGGCATC
57332540 TCTGT
1 TCTGT
57332545 CGAGGATAGT
Statistics
Matches: 202, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.00
43 72 0.36
44 126 0.62
45 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
TCTGTATTGATAGAGAGCAGATCGAAGATGACAGATTTGGCATC
Found at i:57332441 original size:87 final size:86
Alignment explanation
Indices: 57332278--57332544 Score: 342
Period size: 87 Copynumber: 3.1 Consensus size: 86
57332268 AGAGTAGATT
* * * *
57332278 TCTGTATTGACAGAGAGTAGATCGAAGATAACAG-TTTGGCGTCTCTGTATTGACAGAGAGCAGA
1 TCTGTATT-ATAGAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGATAGAGAGCAGA
57332342 TCGAAGATGACAGATTTGGCATC
65 TCGAAGA-GACAGATTTGGCATC
*
57332365 TCTGTATTAATAGAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGATAGAGAGTAGA
1 TCTGTATT-ATAGAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGATAGAGAGCAGA
* *
57332430 TCGAAGAGACAGATTTGGCGTT
65 TCGAAGAGACAGATTTGGCATC
* * * *
57332452 TCTGTATTGTCAGAGAGCAGATCAAAGATAGCCA-ATTTGGCATCTCTGTATTG-TCAGAGAGCA
1 TCTGTATTAT-AGAGAGCAGATCGAAGAT-GACAGATTTGGCGTCTCTGTATTGAT-AGAGAGCA
*
57332515 GATCGAAGATAGCAGATTTGGCATC
63 GATCGAAGAGA-CAGATTTGGCATC
57332540 TCTGT
1 TCTGT
57332545 CGAGGATAGT
Statistics
Matches: 159, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
86 2 0.01
87 103 0.65
88 54 0.34
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (86 bp):
TCTGTATTATAGAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGATAGAGAGCAGAT
CGAAGAGACAGATTTGGCATC
Found at i:57332456 original size:131 final size:131
Alignment explanation
Indices: 57332278--57332544 Score: 398
Period size: 131 Copynumber: 2.0 Consensus size: 131
57332268 AGAGTAGATT
57332278 TCTGTATTGACAGAGAGTAGATCGAAGATAACAGTTTGGCGTCTCTGTATTGACAGAGAGCAGAT
1 TCTGTATTGACAGAGAGTAGATCGAAGATAACAGTTTGGCGTCTCTGTATTGACAGAGAGCAGAT
*
57332343 CGAAGAT-GACAGATTTGGCATCTCTGTATTAAT-AGAGAGCAGATCGAAGAT-GACAGATTTGG
66 CAAAGATAGACA-ATTTGGCATCTCTGTATT-ATCAGAGAGCAGATCGAAGATAG-CAGATTTGG
*
57332405 CGTC
128 CATC
* * * *
57332409 TCTGTATTGATAGAGAGTAGATCGAAGA-GACAGATTTGGCGTTTCTGTATTGTCAGAGAGCAGA
1 TCTGTATTGACAGAGAGTAGATCGAAGATAACAG-TTTGGCGTCTCTGTATTGACAGAGAGCAGA
* *
57332473 TCAAAGATAGCCAATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCA
65 TCAAAGATAGACAATTTGGCATCTCTGTATTATCAGAGAGCAGATCGAAGATAGCAGATTTGGCA
57332538 TC
130 TC
57332540 TCTGT
1 TCTGT
57332545 CGAGGATAGT
Statistics
Matches: 124, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
130 5 0.04
131 115 0.93
132 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (131 bp):
TCTGTATTGACAGAGAGTAGATCGAAGATAACAGTTTGGCGTCTCTGTATTGACAGAGAGCAGAT
CAAAGATAGACAATTTGGCATCTCTGTATTATCAGAGAGCAGATCGAAGATAGCAGATTTGGCAT
C
Found at i:57332558 original size:27 final size:27
Alignment explanation
Indices: 57332517--57332571 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
57332507 AGAGAGCAGA
57332517 TCGAAGATAGCAGATTTGGCATCTCTG
1 TCGAAGATAGCAGATTTGGCATCTCTG
* * *
57332544 TCGAGGATAGTAGATTTGGCGTCTCTG
1 TCGAAGATAGCAGATTTGGCATCTCTG
57332571 T
1 T
57332572 ACTGACAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (27 bp):
TCGAAGATAGCAGATTTGGCATCTCTG
Found at i:57332946 original size:18 final size:18
Alignment explanation
Indices: 57332925--57332960 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57332915 CCCGGGCCCC
*
57332925 TAAAATAGAATAAAATAA
1 TAAAAAAGAATAAAATAA
*
57332943 TAAAAAATAATAAAATAA
1 TAAAAAAGAATAAAATAA
57332961 ATTTAATGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
TAAAAAAGAATAAAATAA
Found at i:57334288 original size:14 final size:13
Alignment explanation
Indices: 57334271--57334343 Score: 50
Period size: 14 Copynumber: 5.8 Consensus size: 13
57334261 TTTATACGCT
57334271 TTATCATATATATA
1 TTATCAT-TATATA
57334285 TTAT-ATTAT-T-
1 TTATCATTATATA
*
57334295 TTA--ATATATATT
1 TTATCAT-TATATA
57334307 TTATTCATTATATCA
1 TTA-TCATTATAT-A
*
57334322 TTTTCATTATATA
1 TTATCATTATATA
57334335 TTAT-ATTAT
1 TTATCATTAT
57334344 TTTATTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
9 2 0.04
10 6 0.12
11 2 0.04
12 11 0.22
13 6 0.12
14 18 0.37
15 4 0.08
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATCATTATATA
Found at i:57334316 original size:29 final size:29
Alignment explanation
Indices: 57334277--57334353 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
57334267 CGCTTTATCA
57334277 TATATATATTATATTATTTT-AATATATAT
1 TATAT-TATTATATTATTTTCAATATATAT
* * *
57334306 TTTATTCATTATATCATTTTCATTATATAT
1 TATATT-ATTATATTATTTTCAATATATAT
*
57334336 TATATTATTTTATTATTT
1 TATATTATTATATTATTT
57334354 ATTTATTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.03
29 26 0.65
30 13 0.32
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (29 bp):
TATATTATTATATTATTTTCAATATATAT
Found at i:57334335 original size:30 final size:29
Alignment explanation
Indices: 57334284--57334341 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
57334274 TCATATATAT
* *
57334284 ATTATATTATTTTAATATATATTTTATTC
1 ATTATATCATTTTAATATATATTATATTC
*
57334313 ATTATATCATTTTCATTATATATTATATT
1 ATTATATCATTTT-AATATATATTATATT
57334342 ATTTTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATATCATTTTAATATATATTATATTC
Found at i:57334359 original size:21 final size:21
Alignment explanation
Indices: 57334313--57334356 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57334303 TATTTTATTC
57334313 ATTATATCATTTTCATTATAT
1 ATTATATCATTTTCATTATAT
* *
57334334 ATTATATTATTTT-ATTATTT
1 ATTATATCATTTTCATTATAT
57334354 ATT
1 ATT
57334357 TATTACTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTATATCATTTTCATTATAT
Found at i:57334556 original size:17 final size:19
Alignment explanation
Indices: 57334526--57334562 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
57334516 TATATAGTAT
57334526 AATTTTTATATTGT-TTTA
1 AATTTTTATATTGTATTTA
57334544 AATTTTTAT-TTGTATTTA
1 AATTTTTATATTGTATTTA
57334562 A
1 A
57334563 TCTTATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
AATTTTTATATTGTATTTA
Found at i:57335763 original size:35 final size:35
Alignment explanation
Indices: 57335724--57335796 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
57335714 AACAATAGAA
57335724 ATAGGTACTCCATGTAATCTCACAATCTGAGAAAC
1 ATAGGTACTCCATGTAATCTCACAATCTGAGAAAC
57335759 ATAGGTACTCCATGTAATCTCACAATCTGAGAAAC
1 ATAGGTACTCCATGTAATCTCACAATCTGAGAAAC
57335794 ATA
1 ATA
57335797 CAATTCAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (35 bp):
ATAGGTACTCCATGTAATCTCACAATCTGAGAAAC
Found at i:57338923 original size:50 final size:50
Alignment explanation
Indices: 57338848--57339073 Score: 371
Period size: 50 Copynumber: 4.5 Consensus size: 50
57338838 GTGAGTCACG
* *
57338848 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
*
57338898 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * *
57338948 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * *
57338998 TGCGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
57339048 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
57339074 TGCATCCTAG
Statistics
Matches: 161, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 161 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
Found at i:57350824 original size:14 final size:15
Alignment explanation
Indices: 57350787--57350829 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
57350777 AAATATGAAC
57350787 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
57350803 TATA-ATGTGATA-G
1 TATATATGTGAAATG
57350816 TATATATGTGAAAT
1 TATATATGTGAAAT
57350830 CCGAATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:57351011 original size:43 final size:43
Alignment explanation
Indices: 57350950--57351120 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
57350940 CATAGGATTT
* *
57350950 TCGATATGTG-TTCTCATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATT-ACATGTAAGACCACGTCTGGGACATTGGCA
* *
57350993 TCGATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
* * ** * * * *
57351036 TTG-TATTTGATT-TGTGTAAGACC-CTGTTTGGGATAGTGCCA
1 TCGATATGTGATTACATGTAAGACCAC-GTCTGGGACATTGGCA
* *
57351077 TCGATATGTGATAACATGTAAGACCACGTCTGGGGCATTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
57351120 T
1 T
57351121 TGTATGATAT
Statistics
Matches: 99, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
41 22 0.22
42 15 0.15
43 59 0.60
44 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
Found at i:57355079 original size:40 final size:40
Alignment explanation
Indices: 57355024--57355105 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
57355014 GTAAACAGAT
*
57355024 TGTGTTTACAGTTTAAATTCTTTAGGAAAAGATTTAGAGG
1 TGTGTTTACAGTTTAAACTCTTTAGGAAAAGATTTAGAGG
57355064 TGTGTTTACAGTTTAAACTCTTTAGGAAAAGATTTAGAGG
1 TGTGTTTACAGTTTAAACTCTTTAGGAAAAGATTTAGAGG
57355104 TG
1 TG
57355106 AGTGTTCTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (40 bp):
TGTGTTTACAGTTTAAACTCTTTAGGAAAAGATTTAGAGG
Found at i:57357919 original size:40 final size:40
Alignment explanation
Indices: 57357853--57358019 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
57357843 AAATTGAATG
* * *
57357853 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
57357892 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
57357932 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
57357972 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
57358012 ATATCCGG
1 ATATCCGG
57358020 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:57365912 original size:40 final size:40
Alignment explanation
Indices: 57365846--57365949 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
57365836 AAATTGAATG
* * *
57365846 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
57365885 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
57365925 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
57365950 TTCGTTATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
39 13 0.24
40 42 0.76
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:57369212 original size:77 final size:79
Alignment explanation
Indices: 57369078--57369257 Score: 215
Period size: 77 Copynumber: 2.3 Consensus size: 79
57369068 TCGAATGATG
* *
57369078 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
57369143 GTGCGAGTTACTAAT
65 GTGCGAGTTACTAAT
* * * **
57369158 TCCGGGCTAAG-CCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTT
57369220 GTGCGAGTTACT-AT
65 GTGCGAGTTACTAAT
* *
57369234 AACCGGGCTATGTCCCGAAGGCAT
1 -TCCGGGCTAAG-CCCGAAGGCAT
57369258 TTGAACGAGT
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
76 3 0.03
77 50 0.57
78 13 0.15
79 10 0.11
80 11 0.13
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAT
Found at i:57369267 original size:40 final size:39
Alignment explanation
Indices: 57369079--57369260 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
57369069 CGAATGATGT
* *
57369079 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
57369118 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
57369159 CCGGGCTAAG--CCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57369195 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57369236 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57369261 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
37 23 0.19
38 9 0.07
39 9 0.07
40 70 0.58
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57377337 original size:78 final size:80
Alignment explanation
Indices: 57377202--57377382 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 80
57377192 TCGAATGATG
* *
57377202 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
57377267 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
57377281 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
57377343 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
57377360 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
57377383 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:57377392 original size:40 final size:39
Alignment explanation
Indices: 57377203--57377385 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
57377193 CGAATGATGT
* *
57377203 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
57377242 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
57377283 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57377320 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57377361 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57377386 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57380286 original size:27 final size:27
Alignment explanation
Indices: 57380240--57380545 Score: 323
Period size: 27 Copynumber: 11.4 Consensus size: 27
57380230 GAAGTTAATA
* *
57380240 TAGGGT-AAATAACTGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATACCCTTG
*
57380266 TAGGGTAAAATGACCGCAATACCCTTG
1 TAGGGTAAAATGACCGTAATACCCTTG
*
57380293 TAGGGTAAAATGACCGCAATA-CCTCTG
1 TAGGGTAAAATGACCGTAATACCCT-TG
*
57380320 TAGGGTAAAATGACCATAATA-CCTCTG
1 TAGGGTAAAATGACCGTAATACCCT-TG
* *
57380347 TAAGGTAAAATGACAGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATACCCTTG
* *
57380374 TAGGGTAAAATGATCATAATACCCTTG
1 TAGGGTAAAATGACCGTAATACCCTTG
* * *
57380401 TAGGGTAAAATGACCGTAATGCCCCTA
1 TAGGGTAAAATGACCGTAATACCCTTG
* * *
57380428 TAGGGCAAAATGACCGTAATGCCC-TA
1 TAGGGTAAAATGACCGTAATACCCTTG
* * *
57380454 TAGGGCAAAATGACCGTAATACCCCTA
1 TAGGGTAAAATGACCGTAATACCCTTG
* * * *
57380481 CAGGGTAAAATTACCGTAATGCCCTTA
1 TAGGGTAAAATGACCGTAATACCCTTG
* * * *
57380508 TAGGGTGAAATGACTGTAATACCCCTC
1 TAGGGTAAAATGACCGTAATACCCTTG
*
57380535 TAAGGTAAAAT
1 TAGGGTAAAAT
57380546 AAAAATTATG
Statistics
Matches: 243, Mismatches: 33, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
26 34 0.14
27 206 0.85
28 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCTTG
Found at i:57380835 original size:38 final size:38
Alignment explanation
Indices: 57380793--57380874 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
57380783 CTGCGATATC
*
57380793 GGTGTGCTGGGTGGGTGGGTCAATTTATATCCCCACAT
1 GGTGTGCTGGCTGGGTGGGTCAATTTATATCCCCACAT
* *
57380831 GGTGTTCTGGCTGGGTGGGTCAATTTATATCCCCATAT
1 GGTGTGCTGGCTGGGTGGGTCAATTTATATCCCCACAT
57380869 GGTGTG
1 GGTGTG
57380875 TTGGTTGGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.15, C:0.17, G:0.34, T:0.34
Consensus pattern (38 bp):
GGTGTGCTGGCTGGGTGGGTCAATTTATATCCCCACAT
Found at i:57380973 original size:28 final size:28
Alignment explanation
Indices: 57380937--57380991 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
57380927 ATTACACTGT
* *
57380937 ATTGATACTATATTGGGCTTAGGCCCAC
1 ATTGATACTATATAGGGCTAAGGCCCAC
* *
57380965 ATTGTTACTGTATAGGGCTAAGGCCCA
1 ATTGATACTATATAGGGCTAAGGCCCA
57380992 GACTGTACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (28 bp):
ATTGATACTATATAGGGCTAAGGCCCAC
Found at i:57390969 original size:18 final size:18
Alignment explanation
Indices: 57390946--57390984 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
57390936 GGATCGTGGG
57390946 AAGCCATATTTAGGTTCT
1 AAGCCATATTTAGGTTCT
57390964 AAGCCATATTTAGGTTCT
1 AAGCCATATTTAGGTTCT
57390982 AAG
1 AAG
57390985 GCCCAAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (18 bp):
AAGCCATATTTAGGTTCT
Found at i:57404604 original size:40 final size:40
Alignment explanation
Indices: 57404559--57404726 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57404549 CGGAATATAA
57404559 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57404599 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57404639 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
57404679 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57404719 CCGGATAT
1 CCGGATAT
57404727 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57408251 original size:7 final size:7
Alignment explanation
Indices: 57408227--57408262 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
57408217 ATACCACCAT
57408227 TATGTGA
1 TATGTGA
*
57408234 TATATGA
1 TATGTGA
57408241 TATGTGA
1 TATGTGA
57408248 TATGTGA
1 TATGTGA
*
57408255 GATGTGA
1 TATGTGA
57408262 T
1 T
57408263 GATAAAGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.42
Consensus pattern (7 bp):
TATGTGA
Found at i:57413271 original size:48 final size:48
Alignment explanation
Indices: 57413218--57413314 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
57413208 TTTTTCTATA
*
57413218 TATTTATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGATCTTT
1 TATTTATCTTATTTTAGTTAGTGAATTAAAAATTAAAACACGATCTTT
*
57413266 TATTTATCTTATTTTAGTTAGTGAATTAAAAATTAAAACACGTTCTTT
1 TATTTATCTTATTTTAGTTAGTGAATTAAAAATTAAAACACGATCTTT
57413314 T
1 T
57413315 CTCCCTCTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.47
Consensus pattern (48 bp):
TATTTATCTTATTTTAGTTAGTGAATTAAAAATTAAAACACGATCTTT
Found at i:57421617 original size:37 final size:38
Alignment explanation
Indices: 57421576--57421657 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
57421566 GTGTGTAAGA
*
57421576 TGGATGAGCCTTTTAT-G-GTTCTATGTGGTGTGCAGGG
1 TGGATGAGCCTTTTATAGCCTT-TATGTGGTGTGCAGGG
* * *
57421613 TGGATGGGTCTTTTGTAGCCTTTATGTGGTGTGCAGGG
1 TGGATGAGCCTTTTATAGCCTTTATGTGGTGTGCAGGG
57421651 TGGATGA
1 TGGATGA
57421658 AGTGGTGTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
37 13 0.34
38 23 0.61
39 2 0.05
ACGTcount: A:0.13, C:0.10, G:0.39, T:0.38
Consensus pattern (38 bp):
TGGATGAGCCTTTTATAGCCTTTATGTGGTGTGCAGGG
Found at i:57434951 original size:17 final size:18
Alignment explanation
Indices: 57434909--57434957 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
57434899 AGTTGAAAAG
57434909 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
57434928 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
57434945 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
57434958 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:57435841 original size:40 final size:40
Alignment explanation
Indices: 57435775--57435941 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
57435765 AAATTGAATG
* * *
57435775 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
57435814 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
57435854 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
57435894 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
57435934 ATATCCGG
1 ATATCCGG
57435942 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:57442940 original size:17 final size:18
Alignment explanation
Indices: 57442898--57442946 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
57442888 AGTTGAAAAG
57442898 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
57442917 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
57442934 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
57442947 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:57443720 original size:17 final size:17
Alignment explanation
Indices: 57443698--57443733 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
57443688 TGTTTGAGCT
57443698 TAGTAACGAAAATGAAA
1 TAGTAACGAAAATGAAA
57443715 TAGTAACGAAAATGAAA
1 TAGTAACGAAAATGAAA
57443732 TA
1 TA
57443734 TGTATGTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.19
Consensus pattern (17 bp):
TAGTAACGAAAATGAAA
Found at i:57443847 original size:40 final size:40
Alignment explanation
Indices: 57443781--57443947 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
57443771 AAATTGAATG
* * *
57443781 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
57443820 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
57443860 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
57443900 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
57443940 ATATCCGG
1 ATATCCGG
57443948 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:57454541 original size:19 final size:19
Alignment explanation
Indices: 57454516--57454639 Score: 179
Period size: 19 Copynumber: 6.8 Consensus size: 19
57454506 ATAATCTTCA
57454516 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
57454535 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
57454554 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
57454571 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
57454589 ATGATA--CAATCTTATAT
1 ATGATATGCAATCTTAGAT
57454606 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
57454624 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
57454640 AAAGATATGA
Statistics
Matches: 94, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
17 31 0.33
18 31 0.33
19 32 0.34
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:57454556 original size:14 final size:15
Alignment explanation
Indices: 57454537--57454627 Score: 76
Period size: 18 Copynumber: 5.5 Consensus size: 15
57454527 TCTTAGATGT
57454537 GATATG-CAATCTTA
1 GATATGACAATCTTA
57454551 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
57454568 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
57454586 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
*
57454603 TATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
57454621 GATATGA
1 GATATGA
57454628 TATACAATCT
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 6 0.09
15 2 0.03
17 27 0.42
18 28 0.44
20 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:57454586 original size:35 final size:35
Alignment explanation
Indices: 57454524--57454639 Score: 187
Period size: 35 Copynumber: 3.2 Consensus size: 35
57454514 CAATGATATG
*
57454524 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
57454560 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
57454595 CAATCTTATATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
57454632 CAATCTTA
1 CAATCTTA
57454640 AAAGATATGA
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 50 0.66
36 15 0.20
37 11 0.14
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:57460359 original size:8 final size:7
Alignment explanation
Indices: 57460335--57460396 Score: 74
Period size: 7 Copynumber: 8.7 Consensus size: 7
57460325 CTTCTATTTC
57460335 AAAAAA-
1 AAAAAAG
*
57460341 AAGAAAG
1 AAAAAAG
57460348 AAAAAGAG
1 AAAAA-AG
57460356 AAAAAAG
1 AAAAAAG
57460363 AAAAAA-
1 AAAAAAG
57460369 AAAAAGAG
1 AAAAA-AG
57460377 AAAAAAG
1 AAAAAAG
57460384 AAAAAAAG
1 -AAAAAAG
57460392 AAAAA
1 AAAAA
57460397 TGAGAGGCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
6 10 0.20
7 20 0.41
8 19 0.39
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:57460378 original size:29 final size:28
Alignment explanation
Indices: 57460335--57460396 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
57460325 CTTCTATTTC
*
57460335 AAAAAAAAGAAAG-AAAAAGAGAAAAAAG
1 AAAAAAAAAAAAGAAAAAAGA-AAAAAAG
57460363 AAAAAAAAAAAGAGAAAAAAGAAAAAAAG
1 AAAAAAAAAAA-AGAAAAAAGAAAAAAAG
57460392 AAAAA
1 AAAAA
57460397 TGAGAGGCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 10 0.32
29 14 0.45
30 7 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (28 bp):
AAAAAAAAAAAAGAAAAAAGAAAAAAAG
Found at i:57460389 original size:21 final size:21
Alignment explanation
Indices: 57460335--57460395 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
57460325 CTTCTATTTC
*
57460335 AAAAAA-AAGAAAGAAAAAGAG
1 AAAAAAGAA-AAAAAAAAAGAG
57460356 AAAAAAGAAAAAAAAAAAGAG
1 AAAAAAGAAAAAAAAAAAGAG
57460377 AAAAAAGAAAAAAAGAAAA
1 AAAAAAGAAAAAAA-AAAA
57460396 ATGAGAGGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 31 0.84
22 6 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAAAAGAG
Found at i:57461398 original size:44 final size:44
Alignment explanation
Indices: 57461349--57461489 Score: 146
Period size: 44 Copynumber: 3.3 Consensus size: 44
57461339 CGCCTTAATC
57461349 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTCT
* * * * *** * * *
57461393 CCCTAAGCAGT-AGTGGAGCAGATTGAA-GACCCG-CCTTAATC-
1 CCCTAAGCAGTAAG-GTAACAGGTTAAATTTGCAGATCTTATTCT
*
57461434 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTCT
57461478 CCCTAAGCAGTA
1 CCCTAAGCAGTA
57461490 GTGGAGCAGA
Statistics
Matches: 71, Mismatches: 21, Indels: 10
0.70 0.21 0.10
Matches are distributed among these distances:
41 20 0.28
42 9 0.13
43 10 0.14
44 32 0.45
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
CCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTCT
Found at i:57461445 original size:41 final size:41
Alignment explanation
Indices: 57461393--57461531 Score: 129
Period size: 41 Copynumber: 3.3 Consensus size: 41
57461383 ATCTTATTCT
*
57461393 CCCTAAGCAGTAGTGGAGCAGATTGAAGACCCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATTGAAAACCCGCCTTAATC
* * ** * * *
57461434 CCCTAAGCAGTAG-GGTAACAGGTT-AAATTTGCAGATCTTATTC
1 CCCTAAGCAGTAGTGG-AGCAGATTGAAA--ACCCG-CCTTAATC
* *
57461477 TCCCTAAGCAGTAGTGGAGCAGATCGAAAACTCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGAAAACCCGCCTTAATC
57461519 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
57461532 GGTAACAGGT
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
40 4 0.05
41 32 0.43
42 8 0.11
43 7 0.09
44 18 0.24
45 5 0.07
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATTGAAAACCCGCCTTAATC
Found at i:57461482 original size:85 final size:85
Alignment explanation
Indices: 57461339--57461704 Score: 523
Period size: 85 Copynumber: 4.3 Consensus size: 85
57461329 CAAAATTTAG
*
57461339 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
* *
57461404 AGTGGAGCAGATTGAAGACC
66 AGTGGAGCAGATCGAAGACT
57461424 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
*
57461489 AGTGGAGCAGATCGAAAACT
66 AGTGGAGCAGATCGAAGACT
*
57461509 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTA-TCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
** * *
57461568 AGCAGAGCAAACCGATGACGACT
66 AGTGGAGCAGATCGA--A-GACT
*
57461591 CGCCTTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATT-TCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
57461655 AGTGGAGCAGATCGAAGACGAT
66 AGTGGAGCAGATCGAAGAC--T
*
57461677 GCACCTTAA-CCCCTAAGCAGTAGGGTAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAA
57461705 TAGACCAAGA
Statistics
Matches: 251, Mismatches: 18, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
79 25 0.10
80 9 0.04
81 1 0.00
82 36 0.14
83 1 0.00
84 4 0.02
85 116 0.46
86 19 0.08
87 39 0.16
88 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (85 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACT
Found at i:57461624 original size:167 final size:168
Alignment explanation
Indices: 57461338--57461704 Score: 523
Period size: 167 Copynumber: 2.2 Consensus size: 168
57461328 ACAAAATTTA
*
57461338 GCGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAG
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CAGATCTTATTCTCCCTAAGCAG
**
57461403 TAGTGGAGCAGATTGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAG
63 TAGCAGAGCAGATTGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAG
57461468 ATCTTATTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAC-T
128 ATCTTATT-TCCCTAAGCAGTAGTGGAGCAGATCGAAAACAT
*
57461509 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA-CAGATCTTA-TCTCCCTAAGCAGTAG
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTTATTCTCCCTAAGCAGTAG
* * *
57461570 CAGAGCAAACCGA-TGACGACTCGCCTTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA
66 CAGAGC--A--GATTGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA
*
57461634 GATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAT
127 GATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAAAC-AT
*
57461677 GCACCTTAA-CCCCTAAGCAGTAGGGTAA
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAA
57461705 TAGACCAAGA
Statistics
Matches: 180, Mismatches: 9, Indels: 17
0.87 0.04 0.08
Matches are distributed among these distances:
164 20 0.11
165 9 0.05
166 31 0.17
167 57 0.32
168 22 0.12
169 8 0.04
170 33 0.18
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (168 bp):
GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTTATTCTCCCTAAGCAGTAG
CAGAGCAGATTGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATC
TTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAAACAT
Found at i:57462165 original size:207 final size:207
Alignment explanation
Indices: 57461711--57463039 Score: 2196
Period size: 207 Copynumber: 6.4 Consensus size: 207
57461701 GTAATAGACC
*
57461711 AAGACATAGCTGATTTGGCTTTCACGTGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
57461776 TGTTTTATCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* * * * *
57461841 GATTTGGCCTTTAAATG-TTATACTGAAGGAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
57461905 AGGAACAAATCA
196 AGGAACAAATCG
* *
57461917 AAGACATAACTGATTTGGCTTTCACGTGTTTACGATGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
57461982 TGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAAACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
57462047 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
57462112 AGGAACAAATCG
196 AGGAACAAATCG
*
57462124 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
57462189 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* *
57462254 GACCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
57462319 AGGAACAAATCG
196 AGGAACAAATCG
* *
57462331 AAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCATCTT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
57462396 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* * *
57462461 AACCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
57462526 AGGAACAAATCG
196 AGGAACAAATCG
*
57462538 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTT
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * * *
57462603 TGTATTGTCAGAGAAGAAATCAAAGTTTGGCGTCTCCATATTGGACAGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* *
57462668 GATCTAGCCTTTAGATGTTTATACTGAAACAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
57462733 AGGAACAAATCA
196 AGGAACAAATCG
* *
57462745 AAGACATAACTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCATCT-
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * * *
57462809 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGACGGAGGACAGACATATAGTA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* * * * *
57462874 GATCTAACCTTCAAATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
57462938 AGGAGCAAATCG
196 AGGAACAAATCG
* * *
57462950 AAGACATAGCTGATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * * * *
57463015 CGTATTATTAGGGAACAAATTGAAG
66 TGTATTGTCAGAGAACAAATCGAAG
57463040 ACGCAGTTTT
Statistics
Matches: 1060, Mismatches: 61, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
205 102 0.10
206 238 0.22
207 720 0.68
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
AGGAACAAATCG
Found at i:57463447 original size:17 final size:20
Alignment explanation
Indices: 57463425--57463537 Score: 81
Period size: 17 Copynumber: 6.3 Consensus size: 20
57463415 ATGGAAATAT
57463425 AATCTTTA-ATG-G-TATGC
1 AATCTTTAGATGTGATATGC
57463442 AATC-TTAGATGTGATATGC
1 AATCTTTAGATGTGATATGC
*
57463461 AATC-TTAGATATGATA--C
1 AATCTTTAGATGTGATATGC
*
57463478 AATC-TTAGATATGAT-TGC
1 AATCTTTAGATGTGATATGC
* *
57463496 AAT-ATTAGATATGATA--C
1 AATCTTTAGATGTGATATGC
* *
57463513 AATC-TTAGATATGATATAC
1 AATCTTTAGATGTGATATGC
57463532 AATCTT
1 AATCTT
57463538 AAAAGATATG
Statistics
Matches: 84, Mismatches: 1, Indels: 19
0.81 0.01 0.18
Matches are distributed among these distances:
16 3 0.04
17 39 0.46
18 16 0.19
19 25 0.30
20 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (20 bp):
AATCTTTAGATGTGATATGC
Found at i:57463461 original size:19 final size:19
Alignment explanation
Indices: 57463437--57463538 Score: 142
Period size: 17 Copynumber: 5.6 Consensus size: 19
57463427 TCTTTAATGG
*
57463437 TATGCAATCTTAGATGTGA
1 TATGCAATCTTAGATATGA
57463456 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
57463475 TA--CAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
57463492 T-TGCAATATTAGATATGA
1 TATGCAATCTTAGATATGA
57463510 TA--CAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
57463527 TATACAATCTTA
1 TATGCAATCTTA
57463539 AAAGATATGA
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
17 32 0.43
18 15 0.20
19 28 0.37
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:57463504 original size:35 final size:36
Alignment explanation
Indices: 57463441--57463534 Score: 154
Period size: 35 Copynumber: 2.6 Consensus size: 36
57463431 TAATGGTATG
* *
57463441 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATATTAGATATGATA
57463477 CAATCTTAGATATGAT-TGCAATATTAGATATGATA
1 CAATCTTAGATATGATATGCAATATTAGATATGATA
*
57463512 CAATCTTAGATATGATATACAAT
1 CAATCTTAGATATGATATGCAAT
57463535 CTTAAAAGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 34 0.63
36 20 0.37
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATATTAGATATGATA
Found at i:57472730 original size:27 final size:27
Alignment explanation
Indices: 57472700--57472758 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
57472690 TTAACACCCT
57472700 AGGGGCAAAAT-GGTAATTCTACCCTAC
1 AGGGG-AAAATCGGTAATTCTACCCTAC
* ** *
57472727 AGGGGTATTTCGGTAATTTTACCCTAC
1 AGGGGAAAATCGGTAATTCTACCCTAC
57472754 AGGGG
1 AGGGG
57472759 TATTTTAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (27 bp):
AGGGGAAAATCGGTAATTCTACCCTAC
Found at i:57472759 original size:27 final size:28
Alignment explanation
Indices: 57472726--57472908 Score: 216
Period size: 27 Copynumber: 6.8 Consensus size: 28
57472716 TTCTACCCTA
* **
57472726 CAGGGGTATTTCGGTAATTTTACCCTA-
1 CAGGGGTATTTTGGTAATTTTACCAAAC
* *
57472753 CAGGGGTATTTTAGTAATTTT-GCAAAC
1 CAGGGGTATTTTGGTAATTTTACCAAAC
*
57472780 CATGGGTATTTTGGTAATTTTA-CAAAC
1 CAGGGGTATTTTGGTAATTTTACCAAAC
*
57472807 CAGGGGTATTTTGGTAATTTT-GCAAAC
1 CAGGGGTATTTTGGTAATTTTACCAAAC
* *
57472834 CAGGGATATTTTGGTAATTTT-GCAAAC
1 CAGGGGTATTTTGGTAATTTTACCAAAC
* * *
57472861 TAGGGGTATTTTGGTAGTTTTA-CAACC
1 CAGGGGTATTTTGGTAATTTTACCAAAC
57472888 CAGGGGTATTTTGGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
57472909 GTAAATCGAG
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.01
27 135 0.99
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.39
Consensus pattern (28 bp):
CAGGGGTATTTTGGTAATTTTACCAAAC
Found at i:57472845 original size:81 final size:80
Alignment explanation
Indices: 57472726--57472909 Score: 260
Period size: 81 Copynumber: 2.3 Consensus size: 80
57472716 TTCTACCCTA
* * ** * *
57472726 CAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTTAGTAATTTTGCAAACCATGGGTATTT
1 CAGGGGTATTTTGGTAATTTT-GCAAACAGGGATATTTTAGTAATTTTGCAAACCAGGGGTATTT
57472791 TGGTAATTTTACAAAC
65 TGGTAATTTTACAAAC
* *
57472807 CAGGGGTATTTTGGTAATTTTGCAAACCAGGGATATTTTGGTAATTTTGCAAACTAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTGCAAA-CAGGGATATTTTAGTAATTTTGCAAACCAGGGGTATTT
* *
57472872 TGGTAGTTTTACAACC
65 TGGTAATTTTACAAAC
57472888 CAGGGGTATTTTGGTAATTTTG
1 CAGGGGTATTTTGGTAATTTTG
57472910 TAAATCGAGG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 2 0.02
81 90 0.98
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (80 bp):
CAGGGGTATTTTGGTAATTTTGCAAACAGGGATATTTTAGTAATTTTGCAAACCAGGGGTATTTT
GGTAATTTTACAAAC
Found at i:57472922 original size:54 final size:54
Alignment explanation
Indices: 57472726--57472909 Score: 244
Period size: 54 Copynumber: 3.4 Consensus size: 54
57472716 TTCTACCCTA
* * ** *
57472726 CAGGGGTATTTCGGTAATTTTACCCTA-CAGGGGTATTTTAGTAATTTTGCAAAC
1 CAGGGGTATTTTGGTAATTTT-GCAAACCAGGGGTATTTTGGTAATTTTGCAAAC
* *
57472780 CATGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCAAAC
1 CAGGGGTATTTTGGTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTGCAAAC
* * * * *
57472834 CAGGGATATTTTGGTAATTTTGCAAACTAGGGGTATTTTGGTAGTTTTACAACC
1 CAGGGGTATTTTGGTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTGCAAAC
57472888 CAGGGGTATTTTGGTAATTTTG
1 CAGGGGTATTTTGGTAATTTTG
57472910 TAAATCGAGG
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 113 0.98
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTGCAAAC
Found at i:57472931 original size:81 final size:81
Alignment explanation
Indices: 57472766--57472933 Score: 230
Period size: 81 Copynumber: 2.1 Consensus size: 81
57472756 GGGTATTTTA
*
57472766 GTAATTTTGCAAACCATGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCA
1 GTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCA
****
57472831 AACCAGGGATATTTTG
66 AACCAGGGATAAAACG
* * * *
57472847 GTAATTTTGCAAACTAGGGGTATTTTGGTAGTTTTACAACCCAGGGGTATTTTGGTAATTTTGTA
1 GTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCA
*
57472912 AATCGAGGG-TAAAACG
66 AA-CCAGGGATAAAACG
57472928 GTAATT
1 GTAATT
57472934 CTATAAATTG
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
81 71 0.93
82 5 0.07
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (81 bp):
GTAATTTTGCAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCA
AACCAGGGATAAAACG
Found at i:57473149 original size:27 final size:27
Alignment explanation
Indices: 57472899--57473132 Score: 312
Period size: 27 Copynumber: 8.7 Consensus size: 27
57472889 AGGGGTATTT
*
57472899 TGGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * *
57472926 CGGTAATTCTATAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
57472953 -GAGTAATTCTATAAA-CTGAGGGTAAAA
1 TG-GTAATTCTGTAAATC-GAGGGTAAAA
57472980 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
57473007 TGGTAATTCTGTAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
*
57473034 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * **
57473061 CGGTAATTTTAAAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* *
57473088 CGATAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
57473115 TGGTAATTCTGTAAATCG
1 TGGTAATTCTGTAAATCG
57473133 GGAGTACTTT
Statistics
Matches: 185, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
26 2 0.01
27 180 0.97
28 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:57474883 original size:37 final size:37
Alignment explanation
Indices: 57474830--57474932 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
57474820 CGAATAGTCC
*
57474830 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
57474867 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
57474904 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
57474933 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:57476851 original size:40 final size:40
Alignment explanation
Indices: 57476745--57476928 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
57476735 TGCTGGAAAT
* * * * * **
57476745 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
57476785 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
57476825 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
57476863 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
57476904 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
57476929 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:57484816 original size:40 final size:40
Alignment explanation
Indices: 57484710--57484893 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
57484700 TGCTGGAAAT
* * * * * **
57484710 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
57484750 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
57484790 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
57484828 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
57484869 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
57484894 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:57486406 original size:48 final size:48
Alignment explanation
Indices: 57486350--57486469 Score: 222
Period size: 48 Copynumber: 2.5 Consensus size: 48
57486340 CGGCCACAAT
*
57486350 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
1 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
57486398 ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
57486446 ATACATATTTCACATTAGCCATTC
1 ATACATATTTCACATTAGCCATTC
57486470 TACCTTATCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
Found at i:57486505 original size:25 final size:25
Alignment explanation
Indices: 57486476--57486553 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 25
57486466 ATTCTACCTT
57486476 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
** *
57486501 AT--CACAT-TGGCCAT-TTGGCCTT-
1 ATCACACATAT-G-CATGTTCACATTC
57486523 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
57486548 ATCACA
1 ATCACA
57486554 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 3 0.08
23 14 0.35
24 14 0.35
25 9 0.22
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.32
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Done.