Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 184 of 318
Found at i:57498824 original size:15 final size:15
Alignment explanation
Indices: 57498804--57498835 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
57498794 TGTATCATAA
57498804 AACACCAGAATACAC
1 AACACCAGAATACAC
57498819 AACACCAGAATACAC
1 AACACCAGAATACAC
57498834 AA
1 AA
57498836 ACTTTACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.31, G:0.06, T:0.06
Consensus pattern (15 bp):
AACACCAGAATACAC
Found at i:57501473 original size:15 final size:15
Alignment explanation
Indices: 57501453--57501481 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57501443 TACTATATTA
57501453 CAAATACCGCACTTG
1 CAAATACCGCACTTG
57501468 CAAATACCGCACTT
1 CAAATACCGCACTT
57501482 AAATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.21
Consensus pattern (15 bp):
CAAATACCGCACTTG
Found at i:57502995 original size:16 final size:17
Alignment explanation
Indices: 57502971--57503004 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
57502961 TGAGTATTTG
*
57502971 AATTTAAACAACC-TAT
1 AATTCAAACAACCGTAT
57502987 AATTCAAACAACCGTAT
1 AATTCAAACAACCGTAT
57503004 A
1 A
57503005 TGCCTACTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (17 bp):
AATTCAAACAACCGTAT
Found at i:57505764 original size:12 final size:12
Alignment explanation
Indices: 57505744--57505773 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57505734 TAGGCTTATT
57505744 TTTTC-TTTAGC
1 TTTTCTTTTAGC
57505755 TTTTCTTTTAGC
1 TTTTCTTTTAGC
57505767 TTTTCTT
1 TTTTCTT
57505774 CTTCTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTTCTTTTAGC
Found at i:57506102 original size:50 final size:50
Alignment explanation
Indices: 57506048--57506143 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
57506038 TTTTCTTTAC
* *
57506048 ATACCAAATGTTCGGTATCGCGATGCCTAAAAACTTTTTTGGCCCCAGCG
1 ATACCAAATGTTCGGTATCGCGATGCCCAAAAACGTTTTTGGCCCCAGCG
57506098 ATACCAAATGTTCGGTATCGCGATGCCCAAAAACGTTTTTGGCCCC
1 ATACCAAATGTTCGGTATCGCGATGCCCAAAAACGTTTTTGGCCCC
57506144 CAATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (50 bp):
ATACCAAATGTTCGGTATCGCGATGCCCAAAAACGTTTTTGGCCCCAGCG
Found at i:57510100 original size:27 final size:28
Alignment explanation
Indices: 57510070--57510129 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
57510060 ACATCTGATA
*
57510070 CTAATTC-TGTATTGGGCTTAGGCCCAC
1 CTAATTCTTGTATTGGGCTAAGGCCCAC
*
57510097 CTAATTCTTTTATTGGGCTAAGGCCCAC
1 CTAATTCTTGTATTGGGCTAAGGCCCAC
57510125 CTAAT
1 CTAAT
57510130 ACTATTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (28 bp):
CTAATTCTTGTATTGGGCTAAGGCCCAC
Found at i:57513495 original size:80 final size:80
Alignment explanation
Indices: 57513411--57513559 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
57513401 TATGGTAACC
* * * *
57513411 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
57513475 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
57513491 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
57513556 CCGG
66 CCGG
57513560 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:57513501 original size:40 final size:38
Alignment explanation
Indices: 57513452--57513559 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
57513442 ATCACGATTT
*
57513452 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
57513492 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
57513532 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
57513560 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:57516030 original size:28 final size:28
Alignment explanation
Indices: 57515977--57516039 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
57515967 TCTGATACTG
*
57515977 ATTCTG-TATTGGGCTTAAGCCTACCTA
1 ATTCTGTTATTGGGCTTAAGCCCACCTA
*
57516004 ATTCTGTTATTGGGC-TAAGACCCACCTG
1 ATTCTGTTATTGGGCTTAAG-CCCACCTA
*
57516032 ATACTGTT
1 ATTCTGTT
57516040 TTTGCGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (28 bp):
ATTCTGTTATTGGGCTTAAGCCCACCTA
Found at i:57516994 original size:9 final size:9
Alignment explanation
Indices: 57516947--57517009 Score: 54
Period size: 9 Copynumber: 7.0 Consensus size: 9
57516937 CAAGGTCACG
*
57516947 ATCAATAGC
1 ATCAATATC
* *
57516956 GTCACTATC
1 ATCAATATC
*
57516965 ATCAATAGC
1 ATCAATATC
* * *
57516974 GTCACTAGC
1 ATCAATATC
57516983 ATCAATATC
1 ATCAATATC
*
57516992 ATCACTATC
1 ATCAATATC
57517001 ATCAATATC
1 ATCAATATC
57517010 GATATCATCA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.29
Consensus pattern (9 bp):
ATCAATATC
Found at i:57517009 original size:18 final size:18
Alignment explanation
Indices: 57516947--57517007 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
57516937 CAAGGTCACG
57516947 ATCAATAGCGTCACTATC
1 ATCAATAGCGTCACTATC
*
57516965 ATCAATAGCGTCACTAGC
1 ATCAATAGCGTCACTATC
* *
57516983 ATCAATATCATCACTATC
1 ATCAATAGCGTCACTATC
57517001 ATCAATA
1 ATCAATA
57517008 TCGATATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (18 bp):
ATCAATAGCGTCACTATC
Found at i:57522013 original size:49 final size:48
Alignment explanation
Indices: 57521941--57522167 Score: 262
Period size: 49 Copynumber: 4.6 Consensus size: 48
57521931 TGTGAGGTCA
* *
57521941 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTT
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTT
* * *
57521989 GCATGTGTAGTACTAAGTGCAGGCTACT--ATGCATACCCGATAACTTCGAT
1 -CATGTGTAGTACTAAGTGCAGGCTACTACATG--TACCAGATAA-TTGGTT
* **
57522039 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGG-T
1 CA--TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTT
*
57522089 CATGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATTGGTT
1 CA--TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTT
57522139 GCATGTGTAGTACTAAGTGCAGGCTACTA
1 -CATGTGTAGTACTAAGTGCAGGCTACTA
57522168 TGCGTACTAG
Statistics
Matches: 153, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
47 2 0.01
49 65 0.42
50 49 0.32
51 34 0.22
53 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (48 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTT
Found at i:57523455 original size:35 final size:35
Alignment explanation
Indices: 57523409--57523478 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
57523399 TCAGGTAAGT
57523409 TAAATGTAGGCCAGTGGATCATGAATTAAATGGAA
1 TAAATGTAGGCCAGTGGATCATGAATTAAATGGAA
57523444 TAAATGTAGGCCAGTGGATCATGAATTAAATGGAA
1 TAAATGTAGGCCAGTGGATCATGAATTAAATGGAA
57523479 ATGAGTAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (35 bp):
TAAATGTAGGCCAGTGGATCATGAATTAAATGGAA
Found at i:57524312 original size:41 final size:41
Alignment explanation
Indices: 57524255--57524338 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
57524245 AATACCGTAT
*
57524255 GATCTTTCCTAGTCAAAATAGTAAATGATCAATTCTCTAAG
1 GATCTTTCCTAGTCAAAATAGTAAACGATCAATTCTCTAAG
*
57524296 GATCTTTCCTGGTCAAAATAGTAAACGATCAATTCTCTAAG
1 GATCTTTCCTAGTCAAAATAGTAAACGATCAATTCTCTAAG
57524337 GA
1 GA
57524339 CTAATCAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (41 bp):
GATCTTTCCTAGTCAAAATAGTAAACGATCAATTCTCTAAG
Found at i:57526020 original size:12 final size:12
Alignment explanation
Indices: 57526003--57526065 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
57525993 ACTTAAAAAC
57526003 TTTAATATTAAA
1 TTTAATATTAAA
57526015 TTTAATA-TAATA
1 TTTAATATTAA-A
*
57526027 TTT-ATCTTGATAAA
1 TTTAAT-AT--TAAA
57526041 TATT-ATATTAAA
1 T-TTAATATTAAA
57526053 TTTAATATTAAA
1 TTTAATATTAAA
57526065 T
1 T
57526066 CTTATTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
11 7 0.17
12 25 0.60
14 3 0.07
15 7 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:57531638 original size:23 final size:23
Alignment explanation
Indices: 57531612--57531660 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
57531602 AAATTTACCC
57531612 ATGCATGATATGTTTGTGTTTTG
1 ATGCATGATATGTTTGTGTTTTG
57531635 ATGCATGATATGTTTGTGTTTTG
1 ATGCATGATATGTTTGTGTTTTG
57531658 ATG
1 ATG
57531661 ATTTATGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (23 bp):
ATGCATGATATGTTTGTGTTTTG
Found at i:57541535 original size:66 final size:68
Alignment explanation
Indices: 57541459--57541645 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
57541449 TAGTACCACT
*
57541459 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
57541521 CACG
65 CACG
57541525 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
57541590 ATCACG
63 ATCACG
57541596 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
57541646 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:57541570 original size:71 final size:71
Alignment explanation
Indices: 57541482--57541645 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57541472 CGATTTGTCT
57541482 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57541547 CTTTCA
66 CTTTCA
57541553 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57541618 CTTTCA
66 CTTTCA
57541624 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57541646 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:57541683 original size:71 final size:70
Alignment explanation
Indices: 57541482--57541679 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
57541472 CGATTTGTCT
* * *
57541482 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57541547 CTTTCA
65 CTTTCA
* * *
57541553 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57541618 CTTTCA
65 CTTTCA
* *
57541624 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
57541680 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57554836 original size:44 final size:44
Alignment explanation
Indices: 57554769--57554932 Score: 175
Period size: 44 Copynumber: 3.6 Consensus size: 44
57554759 ATATACAAGC
57554769 TAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGT
1 TAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGT
* * * * * * * * *
57554813 TAGTGTAAGACCTGTCTACGACATGGCATCGACACCAATAGATGAGAGC
1 TAGTGTAAGACCTATCTAGGACATGG---CGTCAGC--TTGTTGTGTGT
57554862 TAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGT
1 TAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGT
* * *
57554906 CAGTGTAAGACCTGTCTAGAACATGGC
1 TAGTGTAAGACCTATCTAGGACATGGC
57554933 ATCGACACCA
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
44 54 0.57
46 5 0.05
47 5 0.05
49 30 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
TAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGT
Found at i:57554868 original size:93 final size:93
Alignment explanation
Indices: 57554766--57554981 Score: 398
Period size: 93 Copynumber: 2.3 Consensus size: 93
57554756 GGGATATACA
*
57554766 AGCTAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGTTAGTGTAAGACCTGTCTA
1 AGCTAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTA
57554831 CG-ACATGGCATCGACACCAATAGATGAG
66 -GAACATGGCATCGACACCAATAGATGAG
57554859 AGCTAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTA
1 AGCTAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTA
57554924 GAACATGGCATCGACACCAATAGATGAG
66 GAACATGGCATCGACACCAATAGATGAG
*
57554952 AGCTAGTGTAAGACCTATCTGGGACATGGC
1 AGCTAGTGTAAGACCTATCTAGGACATGGC
57554982 ATCGGCCTCG
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
92 1 0.01
93 119 0.99
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (93 bp):
AGCTAGTGTAAGACCTATCTAGGACATGGCGTCAGCTTGTTGTGTGTCAGTGTAAGACCTGTCTA
GAACATGGCATCGACACCAATAGATGAG
Found at i:57554869 original size:49 final size:48
Alignment explanation
Indices: 57554813--57555026 Score: 197
Period size: 49 Copynumber: 4.5 Consensus size: 48
57554803 TGTTGTGTGT
*
57554813 TAGTGTAAGACCTGTCTACGACATGGCATCGACACCAATAGATGAGAG
1 TAGTGTAAGACCTGTCTAGGACATGGCATCGACACCAATAGATGAGAG
* * * * * * *
57554861 CTAGTGTAAGACCTATCTAGGACATGG---CGTCAGC--TTGTTGTGTG
1 -TAGTGTAAGACCTGTCTAGGACATGGCATCGACACCAATAGATGAGAG
*
57554905 TCAGTGTAAGACCTGTCTAGAACATGGCATCGACACCAATAGATGAGAG
1 T-AGTGTAAGACCTGTCTAGGACATGGCATCGACACCAATAGATGAGAG
* * * * * *
57554954 CTAGTGTAAGACCTATCTGGGACATGGCATCGGC-CTCGATATATGAAAG
1 -TAGTGTAAGACCTGTCTAGGACATGGCATCGACAC-CAATAGATGAGAG
*
57555003 TCAGTGTAAGACCTGTCTGGGACA
1 T-AGTGTAAGACCTGTCTAGGACA
57555027 CAGCATCAAC
Statistics
Matches: 132, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 29 0.22
46 5 0.04
47 5 0.04
48 2 0.02
49 89 0.67
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
TAGTGTAAGACCTGTCTAGGACATGGCATCGACACCAATAGATGAGAG
Found at i:57562703 original size:49 final size:49
Alignment explanation
Indices: 57562631--57562803 Score: 181
Period size: 49 Copynumber: 3.6 Consensus size: 49
57562621 TGTTGTGTGT
* *
57562631 CAATGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGAGAGC
1 CAATGTAAGACATGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGC
* * * *
57562680 CAATGTAAGACATGTCTGGGACATGGCATCGGCCTCGATATATGAAAGT
1 CAATGTAAGACATGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
* * * * **
57562729 CAGTGTAAGACATGTCTGGGACACGGCATCGACTTTAAT-G-TGCTAGC
1 CAATGTAAGACATGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
* *
57562776 CAGTGTAAGACCATGTTTGGGACATGGC
1 CAATGTAAGA-CATGTCTGGGACATGGC
57562804 TTCGGCATTT
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
47 14 0.13
48 16 0.15
49 74 0.71
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
CAATGTAAGACATGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
Found at i:57562751 original size:98 final size:97
Alignment explanation
Indices: 57562629--57562809 Score: 238
Period size: 98 Copynumber: 1.9 Consensus size: 97
57562619 CTTGTTGTGT
* *
57562629 GTCAATGTAAGACCTGTCTGGGACATGGCATCGACACCAATAGATGAGAGCCAATGTAAGA-CAT
1 GTCAATGTAAGACATGTCTGGGACACGGCATCGACACCAAT-G-TGAGAGCCAATGTAAGACCAT
57562693 GTCTGGGACATGGCATCGGCCTCGATATATGAAA
64 GTCTGGGACATGGCATCGGCCTCGATATATGAAA
* *** ** *
57562727 GTCAGTGTAAGACATGTCTGGGACACGGCATCGACTTTAATGTGCTAGCCAGTGTAAGACCATGT
1 GTCAATGTAAGACATGTCTGGGACACGGCATCGACACCAATGTGAGAGCCAATGTAAGACCATGT
* *
57562792 TTGGGACATGGCTTCGGC
66 CTGGGACATGGCATCGGC
57562810 ATTTTATCCC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
96 14 0.20
97 22 0.31
98 35 0.49
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (97 bp):
GTCAATGTAAGACATGTCTGGGACACGGCATCGACACCAATGTGAGAGCCAATGTAAGACCATGT
CTGGGACATGGCATCGGCCTCGATATATGAAA
Found at i:57566057 original size:15 final size:15
Alignment explanation
Indices: 57566037--57566068 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57566027 TATGCATGTA
57566037 AAATATAAAAGACAT
1 AAATATAAAAGACAT
*
57566052 AAATATAGAAGACAT
1 AAATATAAAAGACAT
57566067 AA
1 AA
57566069 TAGTGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:57569459 original size:49 final size:49
Alignment explanation
Indices: 57569382--57569742 Score: 302
Period size: 49 Copynumber: 7.5 Consensus size: 49
57569372 AGATGCCGAC
57569382 GCCATGTCCCAGACATGGTCTTACACTGACTTTCATATATCGAGGCTGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCGAGGCTGAT
* * *
57569432 GCCGTGTCCCAAACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGAT
* * * * * * *
57569481 GCCATGTCCCAGATAGGTCTTAAATTGGCTCTCATCTATTG-GTG-TCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCT-GAT
* * * *
57569530 GCCATGTCCCAGACAGGTCTTACACTGAC--ACACA-A-C-AAGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGAT
* *
57569574 GCCATGTCCCAGACATGGTCTTACACT-AGCTTGT-ATATCTCGAGGTTGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGA-CTT-TCATATATCGAGGCTGAT
** * * ** *
57569624 G-CATGTCCCAGACATATTTTACACTGGCTTGT-ATACCTCGAGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCGAGGCTGAT
* * * *
57569672 G-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGAT
*
57569718 G-CATGTCCCAGACATGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
57569743 AGCACACATA
Statistics
Matches: 258, Mismatches: 39, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
44 20 0.08
45 13 0.05
46 33 0.13
47 6 0.02
48 58 0.22
49 107 0.41
50 21 0.08
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGAT
Found at i:57572215 original size:21 final size:21
Alignment explanation
Indices: 57572186--57572250 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
57572176 AAAGCTTGAA
*
57572186 AGCTAAACAGAAGCTCATAAG
1 AGCTTAACAGAAGCTCATAAG
57572207 AGCTTAACAGAAGCTCGA-AAG
1 AGCTTAACAGAAGCTC-ATAAG
*
57572228 AGC-TGACTAGAAGCTCATAAG
1 AGCTTAAC-AGAAGCTCATAAG
57572249 AG
1 AG
57572251 TTGAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.10
21 34 0.87
22 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.15
Consensus pattern (21 bp):
AGCTTAACAGAAGCTCATAAG
Found at i:57572262 original size:21 final size:21
Alignment explanation
Indices: 57572194--57572264 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
57572184 AAAGCTAAAC
*
57572194 AGAAGCTCATAAGAGCTT-AAC
1 AGAAGCTCATAAGAG-TTGAAT
* *
57572215 AGAAGCTCGA-AAGAGCTGACT
1 AGAAGCTC-ATAAGAGTTGAAT
57572236 AGAAGCTCATAAGAGTTGAAT
1 AGAAGCTCATAAGAGTTGAAT
*
57572257 AAAAGCTC
1 AGAAGCTC
57572265 GTGAGAGCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.05
21 38 0.93
22 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (21 bp):
AGAAGCTCATAAGAGTTGAAT
Found at i:57578629 original size:24 final size:24
Alignment explanation
Indices: 57578599--57578841 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
57578589 GAATGTGACT
* *
57578599 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
57578623 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57578647 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57578671 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57578695 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57578719 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57578743 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57578767 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57578791 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57578815 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57578839 ATA
1 ATA
57578842 TGGTCTTTGC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:57586608 original size:24 final size:24
Alignment explanation
Indices: 57586578--57586820 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
57586568 GAATGTGACT
* *
57586578 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
57586602 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57586626 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57586650 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57586674 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57586698 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57586722 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57586746 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57586770 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57586794 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57586818 ATA
1 ATA
57586821 TGGTCTTTGC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:57590259 original size:40 final size:39
Alignment explanation
Indices: 57590091--57590275 Score: 162
Period size: 40 Copynumber: 4.7 Consensus size: 39
57590081 AGAAATTGAA
* *
57590091 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
57590131 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
57590171 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
57590211 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
57590251 TGATATCCGGG-TAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
57590276 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 16 0.13
40 95 0.80
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:57603400 original size:39 final size:40
Alignment explanation
Indices: 57603342--57603442 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
57603332 AAATTGAATG
* *
57603342 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
57603381 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
57603421 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
57603443 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:57603435 original size:40 final size:40
Alignment explanation
Indices: 57603342--57603524 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
57603332 AAATTGAATG
* * * * *
57603342 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
57603381 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
57603421 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
57603461 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
57603501 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
57603525 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:57611479 original size:39 final size:40
Alignment explanation
Indices: 57611421--57611521 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
57611411 AAATTGAATG
* *
57611421 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
57611460 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
57611500 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
57611522 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:57611514 original size:40 final size:40
Alignment explanation
Indices: 57611421--57611571 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
57611411 AAATTGAATG
* * * * *
57611421 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
57611460 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
57611500 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
57611540 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
57611572 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:57611586 original size:40 final size:38
Alignment explanation
Indices: 57611417--57611588 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
57611407 TGAGAAATTG
* *
57611417 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
57611456 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
57611493 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
57611533 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
57611573 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
57611589 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:57620028 original size:2 final size:2
Alignment explanation
Indices: 57620021--57620058 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
57620011 ATACACTCCA
*
57620021 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57620059 AATCATCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57623160 original size:39 final size:39
Alignment explanation
Indices: 57623106--57623237 Score: 133
Period size: 39 Copynumber: 3.7 Consensus size: 39
57623096 CTGTGATGTT
*
57623106 TATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
57623145 TATCCGGACTT-A-----G--GG---TGTGCTGGAATTA
1 TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
57623173 TATCCGGACTTAAGGTTCGCAGGCTATGTGCTGGAATTA
1 TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
57623212 TAACCAAACTTAAGGTCCGCAGGCTA
1 TATCCAGACTTAAGGTCCGCAGGCTA
57623238 CATGTTGGAA
Statistics
Matches: 76, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
28 24 0.32
29 1 0.01
31 2 0.03
33 1 0.01
34 1 0.01
36 2 0.03
39 45 0.59
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:57623247 original size:39 final size:39
Alignment explanation
Indices: 57623162--57623247 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
57623152 ACTTAGGGTG
* ** * **
57623162 TGCTGGAATTATATCCGGACTTAAGGTTCGCAGGCTATG
1 TGCTGGAATTATAACCAAACTTAAGGTCCGCAGGCTACA
57623201 TGCTGGAATTATAACCAAACTTAAGGTCCGCAGGCTACA
1 TGCTGGAATTATAACCAAACTTAAGGTCCGCAGGCTACA
*
57623240 TGTTGGAA
1 TGCTGGAA
57623248 ATATGTCCGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (39 bp):
TGCTGGAATTATAACCAAACTTAAGGTCCGCAGGCTACA
Found at i:57625016 original size:45 final size:45
Alignment explanation
Indices: 57624912--57625118 Score: 274
Period size: 45 Copynumber: 4.6 Consensus size: 45
57624902 CAATGATGAT
* * * * *
57624912 GTCCCAGACATGGTCTTACTCGTAACCACATAT-T-GATGCCAAT
1 GTCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
*
57624955 GTCCCAGACGTGGTCTTACACGAAAACACATATATCGATACCAAC
1 GTCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
* *
57625000 ATCCCAGACGTGGTCTTACATGAAAACACATATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
* *
57625045 GCCCCAGATGTGGGTCTTACACGAAAACACATATATCGATGCCAAC
1 GTCCCAGACGT-GGTCTTACACGAAAACACATATATCGATGCCAAC
* **
57625091 GCCCCAGATATGGTCTTACACGAAAACA
1 GTCCCAGACGTGGTCTTACACGAAAACA
57625119 TATAGCATAA
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
43 29 0.20
44 1 0.01
45 74 0.50
46 43 0.29
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (45 bp):
GTCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAAC
Found at i:57625080 original size:91 final size:88
Alignment explanation
Indices: 57624913--57625118 Score: 270
Period size: 91 Copynumber: 2.3 Consensus size: 88
57624903 AATGATGATG
* * * *
57624913 TCCCAGACATGGTCTTAC-TCGTAACCACATATTGATGCCAATGTCCCAGACGTGGTCTTACACG
1 TCCCAGACATGGTCTTACAT-GAAAACACATATTGATGCCAACGCCCCAGACGTGGTCTTACACG
57624977 AAAACACATATATCGATACCAACA
65 AAAACACATATATCGATACCAACA
* *
57625001 TCCCAGACGTGGTCTTACATGAAAACACATATATCGATGCCAACGCCCCAGATGTGGGTCTTACA
1 TCCCAGACATGGTCTTACATGAAAACACATAT-T-GATGCCAACGCCCCAGACGT-GGTCTTACA
* *
57625066 CGAAAACACATATATCGATGCCAACG
63 CGAAAACACATATATCGATACCAACA
* * *
57625092 CCCCAGATATGGTCTTACACGAAAACA
1 TCCCAGACATGGTCTTACATGAAAACA
57625119 TATAGCATAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
88 27 0.26
89 2 0.02
90 17 0.17
91 56 0.55
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (88 bp):
TCCCAGACATGGTCTTACATGAAAACACATATTGATGCCAACGCCCCAGACGTGGTCTTACACGA
AAACACATATATCGATACCAACA
Found at i:57625695 original size:15 final size:15
Alignment explanation
Indices: 57625672--57625702 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57625662 TCAAAAATTC
57625672 CAATACAAAACATAT
1 CAATACAAAACATAT
*
57625687 CAATCCAAAACATAT
1 CAATACAAAACATAT
57625702 C
1 C
57625703 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:57625903 original size:25 final size:25
Alignment explanation
Indices: 57625875--57625923 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
57625865 ATCAAGCTTG
57625875 AGAATGG-TCGAACCTAAGTTTTCTA
1 AGAATGGCT-GAACCTAAGTTTTCTA
57625900 AGAATGGCTGAACCTAAGTTTTCT
1 AGAATGGCTGAACCTAAGTTTTCT
57625924 TTTTCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (25 bp):
AGAATGGCTGAACCTAAGTTTTCTA
Found at i:57650618 original size:20 final size:20
Alignment explanation
Indices: 57650593--57650637 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
57650583 GTGATTTTTA
* *
57650593 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
57650613 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
57650633 ATGAA
1 ATGAA
57650638 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:57656431 original size:74 final size:73
Alignment explanation
Indices: 57656302--57656442 Score: 171
Period size: 74 Copynumber: 1.9 Consensus size: 73
57656292 GCTCTTTGTG
* * * *
57656302 AGCTTCCTAATTAATGGCTCTCTAGAGTTTCCCGATATTGGCTCACTTGAACTTCCTGATATATG
1 AGCTTCCTAATAAATGGATCTCTAGAGTTACCCGATATTGGCTCACATGAACTTCCTGAT-TATG
57656367 GCTATCCGA
65 GCTATCCGA
* *
57656376 AGCTTCCTGATAAATGGATCT-TCAGAGTTACCC-ATTATTGGCTCGA-ATGAGCTTCCTGATTA
1 AGCTTCCTAATAAATGGATCTCT-AGAGTTACCCGA-TATTGGCTC-ACATGAACTTCCTGATTA
57656438 TGGCT
63 TGGCT
57656443 TTTATGAGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
73 9 0.16
74 48 0.83
75 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (73 bp):
AGCTTCCTAATAAATGGATCTCTAGAGTTACCCGATATTGGCTCACATGAACTTCCTGATTATGG
CTATCCGA
Found at i:57658498 original size:49 final size:48
Alignment explanation
Indices: 57658345--57658663 Score: 155
Period size: 49 Copynumber: 6.7 Consensus size: 48
57658335 TGGGATAAGA
* *
57658345 TGTCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGTACATTA--A-
1 TGTCGATGCCATGTCCCAGACA-GGTCTTACACTGGCT-CT-CATTATCAG
* * * * * * * * *
57658393 AGTCGATGACGTGTCCTAGACAGGTCTTAAATTGACTTTCGTATATCGAG
1 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-TATC-AG
*
57658443 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAG
1 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-TATCAG
* * * * *
57658491 TGTCGATGCTATGTCCCAGACAGATCTTACACTGACACACA--A-CA-
1 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTATCAG
* * * * * *
57658535 AG-CTGACGCCATGTCCCAGACAAGTCTTACACTAGCT-TGAATATCCCGAG
1 TGTC-GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTAT--C-AG
* * * * *
57658585 -GTCGATG-TATGTCCCAGACATGTCTTACACTAGCTCT--TGTCTCAA
1 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-TATCAG
* * *
57658630 TGCCGATG-CATGTCTCAGACATGTCTTACACTGG
1 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGG
57658664 TTTTCATAAT
Statistics
Matches: 207, Mismatches: 46, Indels: 38
0.71 0.16 0.13
Matches are distributed among these distances:
43 2 0.01
44 27 0.13
45 6 0.03
46 34 0.16
47 12 0.06
48 48 0.23
49 77 0.37
50 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
TGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTATCAG
Found at i:57658652 original size:46 final size:48
Alignment explanation
Indices: 57658587--57658712 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 48
57658577 ATCCCGAGGT
* * *
57658587 CGATGTATGTCCCAGACATGTCTTACACTAGCTCTTGTC-TCA-AT-GC
1 CGATGCATGTCTCAGACATGTCTTACACTAGCTCTT-TCATAATATGGC
*
57658633 CGATGCATGTCTCAGACATGTCTTACACT-GGT-TTTCATAATATGGC
1 CGATGCATGTCTCAGACATGTCTTACACTAGCTCTTTCATAATATGGC
* *
57658679 TGATACATGTCTCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCTCAGACATGTCTTACACTAGCTC
57658713 ACATACCACA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 2 0.03
44 4 0.06
45 4 0.06
46 56 0.82
47 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (48 bp):
CGATGCATGTCTCAGACATGTCTTACACTAGCTCTTTCATAATATGGC
Found at i:57663563 original size:16 final size:17
Alignment explanation
Indices: 57663532--57663565 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
57663522 AAGAAAATTA
*
57663532 ATTAATATATATTAAAT
1 ATTAATATATAATAAAT
57663549 ATTAA-ATATAATAAAT
1 ATTAATATATAATAAAT
57663565 A
1 A
57663566 AATAAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAATATATAATAAAT
Found at i:57664136 original size:21 final size:21
Alignment explanation
Indices: 57664112--57664159 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
57664102 GATTTTTTTT
* *
57664112 AAGCAAGAATAATATGTTTAG
1 AAGCAAGAATAATATGTCTAA
** *
57664133 AAGCGGGAGTAATATGTCTAA
1 AAGCAAGAATAATATGTCTAA
57664154 AAGCAA
1 AAGCAA
57664160 AATTTATTAT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (21 bp):
AAGCAAGAATAATATGTCTAA
Found at i:57664468 original size:18 final size:20
Alignment explanation
Indices: 57664424--57664469 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
57664414 AAAATAATTG
**
57664424 TAATTTTTTAAAGAGAGTGG
1 TAATTTTTTAAAGAGAGTAA
*
57664444 TAGTTTTTTAAAGAG-G-AA
1 TAATTTTTTAAAGAGAGTAA
57664462 TAATTTTT
1 TAATTTTT
57664470 CAAAATAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.32
19 1 0.05
20 14 0.64
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.46
Consensus pattern (20 bp):
TAATTTTTTAAAGAGAGTAA
Found at i:57665521 original size:78 final size:78
Alignment explanation
Indices: 57665392--57665550 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
57665382 TTCTCCTACT
*
57665392 TTGTGCTTTGGTGGCACCTTTCATTCGCATTGGACATCGAAATAGTTGTGAGGTGTTACATTCAA
1 TTGTGCTTTGGTGGCACCTTTCATTCACATTGGACATCGAAATAGTTGTGAGGTGTTACATTCAA
57665457 ATCCAATTTATAA
66 ATCCAATTTATAA
57665470 TTGTGCTTTGGTGGCACCTTTCATTCACATTGGACATCGAAATAGTTGTGAGGTGTTACATTCAA
1 TTGTGCTTTGGTGGCACCTTTCATTCACATTGGACATCGAAATAGTTGTGAGGTGTTACATTCAA
57665535 ATCCAATTTATAA
66 ATCCAATTTATAA
57665548 TTG
1 TTG
57665551 GTAGATTATA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (78 bp):
TTGTGCTTTGGTGGCACCTTTCATTCACATTGGACATCGAAATAGTTGTGAGGTGTTACATTCAA
ATCCAATTTATAA
Found at i:57666665 original size:43 final size:43
Alignment explanation
Indices: 57666606--57666690 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
57666596 GCGTTTATTT
*
57666606 AAAAAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTGTA
1 AAAAAAACGCCACTAAAAGCCATGACTTTTAGCGGCGTTTGTA
* * ** *
57666649 AAAAAAACGCTACTAAAAGTCATGGTTTTTAGCGGTGTTTGT
1 AAAAAAACGCCACTAAAAGCCATGACTTTTAGCGGCGTTTGT
57666691 TGGGAAAGCG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (43 bp):
AAAAAAACGCCACTAAAAGCCATGACTTTTAGCGGCGTTTGTA
Found at i:57666881 original size:33 final size:31
Alignment explanation
Indices: 57666800--57666885 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
57666790 AGCCCTTCCT
* * *
57666800 GCATTAAATCCAACCAAATACAATAAATATA
1 GCATAAAATACAACCAAAAACAATAAATATA
* * *
57666831 GCATAAAATGCAGCCAAAAACAATAAATTTA
1 GCATAAAATACAACCAAAAACAATAAATATA
57666862 GCATAAAAAATACAACCAAAAACA
1 GCAT--AAAATACAACCAAAAACA
57666886 TTAATTCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
31 30 0.65
33 16 0.35
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.17
Consensus pattern (31 bp):
GCATAAAATACAACCAAAAACAATAAATATA
Found at i:57667153 original size:21 final size:21
Alignment explanation
Indices: 57667129--57667169 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57667119 GCTGTTACCT
57667129 CTGCCTCCCTCACTGCTGCCG
1 CTGCCTCCCTCACTGCTGCCG
**
57667150 CTGCCTCCCTTGCTGCTGCC
1 CTGCCTCCCTCACTGCTGCC
57667170 TCCGCTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.02, C:0.51, G:0.20, T:0.27
Consensus pattern (21 bp):
CTGCCTCCCTCACTGCTGCCG
Found at i:57667611 original size:13 final size:14
Alignment explanation
Indices: 57667586--57667614 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57667576 TAATGAATTG
57667586 AATTAAACAATTAT
1 AATTAAACAATTAT
57667600 AATTAAAC-ATTAT
1 AATTAAACAATTAT
57667613 AA
1 AA
57667615 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:57669814 original size:16 final size:16
Alignment explanation
Indices: 57669793--57669826 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57669783 GTATCCATTG
57669793 ATGAGGAAGGCACTAT
1 ATGAGGAAGGCACTAT
57669809 ATGAGGAAGGCACTAT
1 ATGAGGAAGGCACTAT
57669825 AT
1 AT
57669827 CTTTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (16 bp):
ATGAGGAAGGCACTAT
Found at i:57673194 original size:9 final size:9
Alignment explanation
Indices: 57673180--57673563 Score: 195
Period size: 9 Copynumber: 43.6 Consensus size: 9
57673170 TATCTAAGTA
57673180 TTATGTAAG
1 TTATGTAAG
57673189 TTATGT-A-
1 TTATGTAAG
*
57673196 -TATCTAAG
1 TTATGTAAG
57673204 TATTATGTAAG
1 --TTATGTAAG
57673215 TTATGTAAG
1 TTATGTAAG
*
57673224 TTATGATATG
1 TTATG-TAAG
* * *
57673234 ATATAT-AT
1 TTATGTAAG
*
57673242 TTATGTAAA
1 TTATGTAAG
* *
57673251 TTATAT-AT
1 TTATGTAAG
*
57673259 TTATCTAAG
1 TTATGTAAG
* *
57673268 TTATATGAG
1 TTATGTAAG
* *
57673277 TTATATGAG
1 TTATGTAAG
*
57673286 TTATATAAG
1 TTATGTAAG
* *
57673295 TTATAT-AT
1 TTATGTAAG
*
57673303 TTATCTAAG
1 TTATGTAAG
*
57673312 TTATATAAG
1 TTATGTAAG
57673321 TTATGTAAG
1 TTATGTAAG
*
57673330 TTATATAAG
1 TTATGTAAG
* *
57673339 TTATAT-AT
1 TTATGTAAG
*
57673347 TTATCTAAG
1 TTATGTAAG
*
57673356 TTATATAAG
1 TTATGTAAG
*
57673365 TCATGTAAG
1 TTATGTAAG
*
57673374 TTTTGTAAG
1 TTATGTAAG
*
57673383 TTATGTAAA
1 TTATGTAAG
57673392 TTAT-T-A-
1 TTATGTAAG
* *
57673398 -TAT-AAAA
1 TTATGTAAG
*
57673405 TATATTTAAG
1 T-TATGTAAG
57673415 TATTATGTAAG
1 --TTATGTAAG
*
57673426 TTATGATATG
1 TTATG-TAAG
* * *
57673436 ATATAT-AT
1 TTATGTAAG
57673444 TTATGTAAG
1 TTATGTAAG
*
57673453 TTATATAA-
1 TTATGTAAG
*
57673461 ATATGTAAG
1 TTATGTAAG
*
57673470 TTATATAAG
1 TTATGTAAG
57673479 TTATGTAAG
1 TTATGTAAG
57673488 TTATGTAAG
1 TTATGTAAG
*
57673497 TTATATAAG
1 TTATGTAAG
** *
57673506 TTAAAT-AT
1 TTATGTAAG
*
57673514 TTATCTAAG
1 TTATGTAAG
*
57673523 TTATATAAG
1 TTATGTAAG
*
57673532 TTATGTACG
1 TTATGTAAG
*
57673541 TTTTGTAAG
1 TTATGTAAG
*
57673550 TTATGTAAA
1 TTATGTAAG
57673559 TTATG
1 TTATG
57673564 ATATCAAATA
Statistics
Matches: 290, Mismatches: 64, Indels: 42
0.73 0.16 0.11
Matches are distributed among these distances:
5 3 0.01
6 5 0.02
7 2 0.01
8 39 0.13
9 212 0.73
10 14 0.05
11 14 0.05
12 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:57673197 original size:26 final size:26
Alignment explanation
Indices: 57673168--57673221 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
57673158 TGATATGATA
57673168 TATATCTAAGTATTATGTAAGTTATG
1 TATATCTAAGTATTATGTAAGTTATG
57673194 TATATCTAAGTATTATGTAAGTTATG
1 TATATCTAAGTATTATGTAAGTTATG
57673220 TA
1 TA
57673222 AGTTATGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (26 bp):
TATATCTAAGTATTATGTAAGTTATG
Found at i:57673257 original size:17 final size:17
Alignment explanation
Indices: 57673235--57673273 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
57673225 TATGATATGA
*
57673235 TATATATTTATGTAAAT
1 TATATATTTATCTAAAT
*
57673252 TATATATTTATCTAAGT
1 TATATATTTATCTAAAT
57673269 TATAT
1 TATAT
57673274 GAGTTATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (17 bp):
TATATATTTATCTAAAT
Found at i:57673268 original size:44 final size:43
Alignment explanation
Indices: 57673215--57673529 Score: 211
Period size: 44 Copynumber: 7.0 Consensus size: 43
57673205 ATTATGTAAG
* * * * *
57673215 TTATGTAAGTTATGATA-TGATATATATTTATGTAAATTATATAT
1 TTATCTAAGTTAT-ATAGTTATATA-AGTTATATAAGTTATATAT
*
57673259 TTATCTAAGTTATATGAGTTATATGAGTTATATAAGTTATATAT
1 TTATCTAAGTTATAT-AGTTATATAAGTTATATAAGTTATATAT
*
57673303 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAT
1 TTATCTAAGTTATAT-AGTTATATAAGTTATATAAGTTATATAT
* * * * *
57673347 TTATCTAAGTTATATAAGTCATGTAAGTTTTGTAAGTTATGTAAATT
1 TTATCTAAGTTATAT-AGTTATATAAGTTATATAAGTTA--TATA-T
* * * * * *
57673394 ATTATATAAAATATATTTAAGTATTATGTAAGTTATGATATGATATATAT
1 -TTATCT-AAGT-TATAT-AG--TTATATAAGTTAT-ATAAGTTATATAT
* ** * * *
57673444 TTATGTAAGTTATATAAATATGTAAGTTATATAAGTTATGTAAG
1 TTATCTAAGTTATATAGTTATATAAGTTATATAAGTTATAT-AT
* * * *
57673488 TTATGTAAGTTATATAAGTTAAAT-ATTTATCTAAGTTATATA
1 TTATCTAAGTTATAT-AGTTATATAAGTTATATAAGTTATATA
57673530 AGTTATGTAC
Statistics
Matches: 220, Mismatches: 38, Indels: 27
0.77 0.13 0.09
Matches are distributed among these distances:
43 11 0.05
44 148 0.67
45 9 0.04
46 4 0.02
47 5 0.02
48 8 0.04
49 8 0.04
50 8 0.04
51 3 0.01
52 11 0.05
53 5 0.02
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (43 bp):
TTATCTAAGTTATATAGTTATATAAGTTATATAAGTTATATAT
Found at i:57673537 original size:53 final size:53
Alignment explanation
Indices: 57673206--57673567 Score: 271
Period size: 53 Copynumber: 6.7 Consensus size: 53
57673196 TATCTAAGTA
* * * * * *
57673206 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAGTTAT-ATAAGTTATATATTTATCTAAGTTATATAAG
* * * * * * *
57673259 TTATCTAAGTTATATGAGTTATATGAGTTATATAAGTTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAGTTATATAAGTTATAT-ATTTATCTAAGTTATATAAG
* *
57673312 TTATATAAGTTATGTAAGTTATATAAGTTATATATTTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATATAAGTTATATATTTATCTAAGTTATATAAG
* * * * * * *
57673365 TCATGTAAGTTTTGTAAGTTATGTAAATTATTATATAAAATATATTTAAGTATTATGTAAG
1 TTATGTAAGTTATATAAGTTATATAAGTTA-TATAT----T-TATCTAAG--TTATATAAG
* * * * ** *
57673426 TTATGATATGATATAT-ATTTATGTAAGTTATATAAATATGTAAGTTATATAAG
1 TTATG-TAAGTTATATAAGTTATATAAGTTATATATTTATCTAAGTTATATAAG
* *
57673479 TTATGTAAGTTATGTAAGTTATATAAGTTAAATATTTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATATAAGTTATATATTTATCTAAGTTATATAAG
* * * * *
57673532 TTATGTACGTTTTGTAAGTTATGTAAATTATGATAT
1 TTATGTAAGTTATATAAGTTATATAAGTTAT-ATAT
57673568 CAAATATATT
Statistics
Matches: 244, Mismatches: 51, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
52 27 0.11
53 159 0.65
54 9 0.04
55 7 0.03
58 1 0.00
59 7 0.03
60 4 0.02
61 24 0.10
62 6 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (53 bp):
TTATGTAAGTTATATAAGTTATATAAGTTATATATTTATCTAAGTTATATAAG
Found at i:57673688 original size:15 final size:15
Alignment explanation
Indices: 57673668--57673752 Score: 81
Period size: 15 Copynumber: 5.8 Consensus size: 15
57673658 AAGTTGCGGG
57673668 ATTAAATAATATTTA
1 ATTAAATAATATTTA
57673683 ATTAAATAATATTT-
1 ATTAAATAATATTTA
57673697 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
57673712 ATTAAATAATATTGA
1 ATTAAATAATATTTA
* *
57673727 A-AAAAT-TTATTTTA
1 ATTAAATAATA-TTTA
57673741 ATTAAATAATAT
1 ATTAAATAATAT
57673753 ACATGTCGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
12 2 0.04
13 8 0.14
14 12 0.21
15 24 0.43
16 8 0.14
17 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:57673716 original size:29 final size:29
Alignment explanation
Indices: 57673679--57673752 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
57673669 TTAAATAATA
*
57673679 TTTAATTAAATAATATTTATAAAAA-TTAT
1 TTTAATTAAATAATATTGA-AAAAATTTAT
57673708 TTTAATTAAATAATATTGAAAAAATTTAT
1 TTTAATTAAATAATATTGAAAAAATTTAT
57673737 TTTAATTAAATAATAT
1 TTTAATTAAATAATAT
57673753 ACATGTCGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
28 5 0.12
29 38 0.88
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
TTTAATTAAATAATATTGAAAAAATTTAT
Found at i:57673958 original size:24 final size:24
Alignment explanation
Indices: 57673926--57673996 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
57673916 TTAACTTAAA
57673926 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
57673950 TGATAAAACGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
57673974 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
57673997 CAATAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:57674146 original size:64 final size:64
Alignment explanation
Indices: 57674045--57674177 Score: 257
Period size: 64 Copynumber: 2.1 Consensus size: 64
57674035 TATTTTATTT
*
57674045 AATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAGA
1 AATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGA
57674109 AATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGA
1 AATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGA
57674173 AATAT
1 AATAT
57674178 AGAAATATTA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (64 bp):
AATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGA
Found at i:57676262 original size:85 final size:84
Alignment explanation
Indices: 57676163--57676320 Score: 262
Period size: 85 Copynumber: 1.9 Consensus size: 84
57676153 TACTTCAAAT
* * *
57676163 GCAAATCGAGAAGTATGAGTTCATACAGCATGTTCATCAGAGAGAGTTTAATGTATTGAAATACT
1 GCAAATCGAGAAGTATGAGTTCATACAGCATGTTAATCAGAAAGAG-TTAATGAATTGAAATACT
57676228 AAAATACTACCAAAAAAAAA
65 AAAATACTACCAAAAAAAAA
* *
57676248 GCAAATGGAGAAGTATGAGTTCATACGGCATGTTAATCAGAAAGAGTTAATGAATTGAAATACTA
1 GCAAATCGAGAAGTATGAGTTCATACAGCATGTTAATCAGAAAGAGTTAATGAATTGAAATACTA
57676313 AAATACTA
66 AAATACTA
57676321 AAATACTACA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 26 0.38
85 42 0.62
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.25
Consensus pattern (84 bp):
GCAAATCGAGAAGTATGAGTTCATACAGCATGTTAATCAGAAAGAGTTAATGAATTGAAATACTA
AAATACTACCAAAAAAAAA
Found at i:57676518 original size:13 final size:12
Alignment explanation
Indices: 57676491--57676517 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57676481 AAAAAGGAAA
57676491 TTTAAGTTTTTT
1 TTTAAGTTTTTT
57676503 TTTAAGTTTTTT
1 TTTAAGTTTTTT
57676515 TTT
1 TTT
57676518 TGAATATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTAAGTTTTTT
Found at i:57676608 original size:10 final size:10
Alignment explanation
Indices: 57676593--57676631 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
57676583 TTCAAACTTC
57676593 AAAAAAATTG
1 AAAAAAATTG
57676603 AAAAAAATTG
1 AAAAAAATTG
*
57676613 AAACAAAAATGG
1 -AA-AAAAATTG
57676625 AAAAAAA
1 AAAAAAA
57676632 AAAGTGCAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 15 0.58
11 4 0.15
12 7 0.27
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:57677668 original size:15 final size:16
Alignment explanation
Indices: 57677648--57677681 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57677638 ATTATTTAAT
57677648 ATATAAA-TAAAAACA
1 ATATAAATTAAAAACA
*
57677663 ATATAAATTAAAAATA
1 ATATAAATTAAAAACA
57677679 ATA
1 ATA
57677682 CGTTATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
ATATAAATTAAAAACA
Found at i:57677843 original size:16 final size:16
Alignment explanation
Indices: 57677822--57677861 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
57677812 TTATTGAAAT
57677822 TTTGAAATCATTAAAA
1 TTTGAAATCATTAAAA
57677838 TTTGAAATCATTAAAA
1 TTTGAAATCATTAAAA
57677854 TTTGAAAT
1 TTTGAAAT
57677862 TATTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (16 bp):
TTTGAAATCATTAAAA
Found at i:57677988 original size:7 final size:7
Alignment explanation
Indices: 57677976--57678234 Score: 81
Period size: 7 Copynumber: 36.1 Consensus size: 7
57677966 CACTAATTAT
57677976 CCTAAAC
1 CCTAAAC
57677983 CCTAAAC
1 CCTAAAC
* ***
57677990 CATGTCC
1 CCTAAAC
*
57677997 CCTTAACC
1 CC-TAAAC
57678005 CCTAAAC
1 CCTAAAC
*
57678012 CCATCAAC
1 CC-TAAAC
*
57678020 CTTAAAC
1 CCTAAAC
*
57678027 CATAAAC
1 CCTAAAC
* *
57678034 CATTAATC
1 C-CTAAAC
57678042 CCTAAAC
1 CCTAAAC
**
57678049 TTTAAAC
1 CCTAAAC
*
57678056 ACTAAAC
1 CCTAAAC
57678063 CCTAAAC
1 CCTAAAC
* *
57678070 CAT-ATC
1 CCTAAAC
*
57678076 CTCTTAAC
1 C-CTAAAC
57678084 CCTTAAAC
1 CC-TAAAC
57678092 CCTAAAC
1 CCTAAAC
57678099 CCTAAAC
1 CCTAAAC
* *
57678106 CATTAAC
1 CCTAAAC
* *
57678113 CTTTAATC
1 C-CTAAAC
* *
57678121 CTTAAAA
1 CCTAAAC
**
57678128 TTTAAAC
1 CCTAAAC
*
57678135 ACTAAAC
1 CCTAAAC
*
57678142 ACTAAAC
1 CCTAAAC
57678149 CCTAAAC
1 CCTAAAC
* ***
57678156 CATGTCC
1 CCTAAAC
*
57678163 CCTTAACC
1 CC-TAAAC
57678171 CCT-AAC
1 CCTAAAC
*
57678177 CCTCAAC
1 CCTAAAC
*
57678184 CTTAAAC
1 CCTAAAC
*
57678191 CATAAAC
1 CCTAAAC
* *
57678198 CATTAATC
1 C-CTAAAC
57678206 CCTAAAC
1 CCTAAAC
**
57678213 TTTAAAC
1 CCTAAAC
*
57678220 ACTAAAC
1 CCTAAAC
57678227 CCTAAAC
1 CCTAAAC
57678234 C
1 C
57678235 ATGTCCCCTT
Statistics
Matches: 184, Mismatches: 58, Indels: 20
0.70 0.22 0.08
Matches are distributed among these distances:
6 8 0.04
7 138 0.75
8 38 0.21
ACGTcount: A:0.40, C:0.36, G:0.01, T:0.24
Consensus pattern (7 bp):
CCTAAAC
Found at i:57678069 original size:36 final size:38
Alignment explanation
Indices: 57678022--57678126 Score: 123
Period size: 36 Copynumber: 2.9 Consensus size: 38
57678012 CCATCAACCT
* *
57678022 TAAACCATAAACCATTAATCC-C-TAAACTTTAAACAC
1 TAAACCCTAAACCATTAATCCTCTTAAACCTTAAACAC
* *
57678058 TAAACCCTAAACCA-T-ATCCTCTTAACCCTTAAACCC
1 TAAACCCTAAACCATTAATCCTCTTAAACCTTAAACAC
*
57678094 TAAACCCTAAACCATTAA-CCT-TTAATCCTTAAA
1 TAAACCCTAAACCATTAATCCTCTTAAACCTTAAA
57678127 ATTTAAACAC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
34 4 0.07
35 2 0.03
36 49 0.82
37 4 0.07
38 1 0.02
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (38 bp):
TAAACCCTAAACCATTAATCCTCTTAAACCTTAAACAC
Found at i:57678091 original size:43 final size:42
Alignment explanation
Indices: 57678017--57678236 Score: 147
Period size: 43 Copynumber: 5.3 Consensus size: 42
57678007 TAAACCCATC
* *
57678017 AACCTTAAACCATAAACCATTAATCCC-TAAACTTTAAACACTA
1 AACCCTAAACCAT-AACCTTTAA-CCCTTAAACTTTAAACACTA
*
57678060 AACCCTAAACCATATCCTCTTAACCCTTAAAC------C-CTA
1 AACCCTAAACCATAACCT-TTAACCCTTAAACTTTAAACACTA
* *
57678096 AACCCTAAACCATTAACCTTTAATCCTTAAAATTTAAACACTA
1 AACCCTAAACCA-TAACCTTTAACCCTTAAACTTTAAACACTA
* * * * * ** * *
57678139 AACACTAAACCCTAAACCATGT-CCCCTTAACCCCT-AACCCTC
1 AACCCTAAACCAT-AACC-TTTAACCCTTAAACTTTAAACACTA
* *
57678181 AACCTTAAACCATAAACCATTAATCCC-TAAACTTTAAACACTA
1 AACCCTAAACCAT-AACCTTTAA-CCCTTAAACTTTAAACACTA
57678224 AACCCTAAACCAT
1 AACCCTAAACCAT
57678237 GTCCCCTTAA
Statistics
Matches: 133, Mismatches: 29, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
36 26 0.20
37 6 0.05
41 1 0.01
42 33 0.25
43 65 0.49
44 2 0.02
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (42 bp):
AACCCTAAACCATAACCTTTAACCCTTAAACTTTAAACACTA
Found at i:57678111 original size:29 final size:29
Alignment explanation
Indices: 57677976--57678118 Score: 89
Period size: 29 Copynumber: 4.9 Consensus size: 29
57677966 CACTAATTAT
* *
57677976 CCTAAACCCTAAACCATGT-CCCCTTAACC
1 CCTAAACCCTAAACCAT-TAACCCTTAAAC
* * *
57678005 CCTAAACCCATCAACC-TTAAACCATAAAC
1 CCTAAACCC-TAAACCATTAACCCTTAAAC
* * * *
57678034 CATTAATCCCTAAA-CTTTAAACAC-TAAAC
1 C-CTAAACCCTAAACCATT-AACCCTTAAAC
* * *
57678063 CCTAAACCAT-ATCCTCTTAACCCTTAAAC
1 CCTAAACCCTAAACC-ATTAACCCTTAAAC
*
57678092 CCTAAACCCTAAACCATTAACCTTTAA
1 CCTAAACCCTAAACCATTAACCCTTAA
57678119 TCCTTAAAAT
Statistics
Matches: 85, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
27 1 0.01
28 13 0.15
29 54 0.64
30 17 0.20
ACGTcount: A:0.39, C:0.36, G:0.01, T:0.24
Consensus pattern (29 bp):
CCTAAACCCTAAACCATTAACCCTTAAAC
Found at i:57678134 original size:36 final size:36
Alignment explanation
Indices: 57678052--57678141 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
57678042 CCTAAACTTT
*
57678052 AAACACTAAACCCTAAACCATATCCTCTTAACCCTTA
1 AAAC-CTAAACCCTAAACCATAACCTCTTAACCCTTA
* *
57678089 AACCCTAAACCCTAAACCATTAACCT-TTAATCCTTA
1 AAACCTAAACCCTAAACCA-TAACCTCTTAACCCTTA
** *
57678125 AAATTTAAACACTAAAC
1 AAACCTAAACCCTAAAC
57678142 ACTAAACCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
36 37 0.82
37 8 0.18
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (36 bp):
AAACCTAAACCCTAAACCATAACCTCTTAACCCTTA
Found at i:57678292 original size:29 final size:28
Alignment explanation
Indices: 57678242--57678299 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
57678232 ACCATGTCCC
* * *
57678242 CTTAACCCCTAGACCCTCAACCTTTAAAT
1 CTTAACCCCTAAACCATAAACC-TTAAAT
*
57678271 CTTAACCCTTAAACCATAAACCTTAAAT
1 CTTAACCCCTAAACCATAAACCTTAAAT
57678299 C
1 C
57678300 CCTAAACCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.36, C:0.34, G:0.02, T:0.28
Consensus pattern (28 bp):
CTTAACCCCTAAACCATAAACCTTAAAT
Found at i:57678308 original size:15 final size:15
Alignment explanation
Indices: 57678255--57678309 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
57678245 AACCCCTAGA
*
57678255 CCCTCAACCTTTAAAT
1 CCCTAAACC-TTAAAT
* *
57678271 -CTTAACCCTTAAA-
1 CCCTAAACCTTAAAT
*
57678284 CCATAAACCTTAAAT
1 CCCTAAACCTTAAAT
57678299 CCCTAAACCTT
1 CCCTAAACCTT
57678310 TAGCCCTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.36, C:0.35, G:0.00, T:0.29
Consensus pattern (15 bp):
CCCTAAACCTTAAAT
Found at i:57678483 original size:14 final size:16
Alignment explanation
Indices: 57678466--57678503 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
57678456 TCATAATCCA
*
57678466 TAAACCATA-A-ACCT
1 TAAACCATATATACCC
57678480 TAAACCATATATACCC
1 TAAACCATATATACCC
57678496 TAAACCAT
1 TAAACCAT
57678504 GCATAAACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 11 0.52
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAACCATATATACCC
Found at i:57679402 original size:40 final size:39
Alignment explanation
Indices: 57679358--57679451 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 39
57679348 CTTAATCTTT
* * *
57679358 TAGCGGCGTTTTTATACAAACGTTGCT-ATAGGTC-GACCTA
1 TAGCGGCGTTTTTA-A-AAACGCTGCTAATA-CTCAAACCTA
*
57679398 TAGCGGTGCTTTCTTAAAAACGCTGCTAATACTCAAACCTA
1 TAGCGGCG-TTT-TTAAAAACGCTGCTAATACTCAAACCTA
57679439 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
57679452 GATAAAGCGC
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
39 2 0.04
40 21 0.47
41 19 0.42
42 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAAAACGCTGCTAATACTCAAACCTA
Found at i:57679790 original size:155 final size:155
Alignment explanation
Indices: 57679309--57679923 Score: 757
Period size: 155 Copynumber: 4.0 Consensus size: 155
57679299 TAGTTTAGAT
* * * *
57679309 CTATTGCCACTGAAGCTCAAAATAAACGACACCGTTCGGCTTAATCTTTTAGCGGCGTTTTTATA
1 CTATTGACACTGAAGCTCACAATAAACGACGCCGTTCGGCTTAATCTTTTAGTGGCGTTTTTATA
* ** *
57679374 CAAACGTTGCTATAGGTCGACCTATAGCGGTGCTTTCTTAAAAACGCTGCTAATACTCAAACCTA
66 AAAACGCCGCTATAGGTCGACCTATAGCGGCGCTTTCTTAAAAACGCTGCTAATACTCAAACCTA
*
57679439 TAGCGGCGTTTTTGATAAAGCGCCG
131 TAGCGGCGTTTTTGATAAAGAGCCG
* * * *
57679464 CTATTGACACTGAAGCTCACAATAAACGATGTCGTTCGGCTTAATCTATTAGTGGCGTTTTTACA
1 CTATTGACACTGAAGCTCACAATAAACGACGCCGTTCGGCTTAATCTTTTAGTGGCGTTTTTATA
* * *
57679529 AAAA------T-GAGGTAGACCTATAGCGGCGCTTTCTTAAAAACGTTGCTAATACTCAAACCTA
66 AAAACGCCGCTATAGGTCGACCTATAGCGGCGCTTTCTTAAAAACGCTGCTAATACTCAAACCTA
* *
57679587 TAGCGGTGTTTTTGATAAAGTGCCG
131 TAGCGGCGTTTTTGATAAAGAGCCG
* * * *
57679612 CTATTGACACTGAAGCTCACAATAAACGATGCCGTTTGGCTTAATCTTTTAATGGTGTTTTTATA
1 CTATTGACACTGAAGCTCACAATAAACGACGCCGTTCGGCTTAATCTTTTAGTGGCGTTTTTATA
* * * * * * * *** *
57679677 AAAACGCCGCTATAGGTCGACCTATAGTGGCACTTTATCAAAAACACCGCT-ATAGGTTTGA-GT
66 AAAACGCCGCTATAGGTCGACCTATAGCGGCGCTTTCTTAAAAACGCTGCTAATA-CTCAAACCT
* * *
57679740 ATTAGCGGCATTTTTAATAAAGAGCCA
130 A-TAGCGGCGTTTTTGATAAAGAGCCG
* * *
57679767 CTATTGACACTGAAGCTCACAATAAATGACGTCGTTCGACTTAATCTTTTAGTGGCGTTTTTATA
1 CTATTGACACTGAAGCTCACAATAAACGACGCCGTTCGGCTTAATCTTTTAGTGGCGTTTTTATA
*
57679832 AAAACGCCGCTATAGGTCGACCTATAGCGGCGCTTTCTTAAAAACGCCT-CTAATACTC-AATCT
66 AAAACGCCGCTATAGGTCGACCTATAGCGGCGCTTTCTTAAAAACG-CTGCTAATACTCAAACCT
*
57679895 ATAGCGGCGTTTTTGATAAAGCGCCG
130 ATAGCGGCGTTTTTGATAAAGAGCCG
57679921 CTA
1 CTA
57679924 ATACTCGATC
Statistics
Matches: 387, Mismatches: 61, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
148 135 0.35
149 1 0.00
154 31 0.08
155 216 0.56
156 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (155 bp):
CTATTGACACTGAAGCTCACAATAAACGACGCCGTTCGGCTTAATCTTTTAGTGGCGTTTTTATA
AAAACGCCGCTATAGGTCGACCTATAGCGGCGCTTTCTTAAAAACGCTGCTAATACTCAAACCTA
TAGCGGCGTTTTTGATAAAGAGCCG
Found at i:57679897 original size:40 final size:40
Alignment explanation
Indices: 57679820--57679936 Score: 116
Period size: 40 Copynumber: 2.9 Consensus size: 40
57679810 ATCTTTTAGT
* * *
57679820 GGCGTTTTT-ATAAAAACGCCGCT-ATAGGTCGACCTATAGC
1 GGCGTTTTTGAT-AAAACGCCGCTAATA-CTCAATCTATAGC
*
57679860 GGCGCTTTCTT-A-AAAACGCCTCTAATACTCAATCTATAGC
1 GGCG-TTT-TTGATAAAACGCCGCTAATACTCAATCTATAGC
* *
57679900 GGCGTTTTTGATAAAGCGCCGCTAATACTCGATCTAT
1 GGCGTTTTTGATAAAACGCCGCTAATACTCAATCTAT
57679937 TCAATTTTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
38 2 0.03
39 4 0.06
40 50 0.77
41 6 0.09
42 3 0.05
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (40 bp):
GGCGTTTTTGATAAAACGCCGCTAATACTCAATCTATAGC
Found at i:57682908 original size:48 final size:48
Alignment explanation
Indices: 57682778--57682920 Score: 178
Period size: 48 Copynumber: 3.0 Consensus size: 48
57682768 CATTAGGGAA
* * *
57682778 TACATTGATTTAGCTTCGGGCCATGATACCGACACTTCGGGTGCAAGT
1 TACATTGATTTAGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGT
* * *
57682826 TACATTGATTTCGCTTCAGGCAATGATATCGGCACTTCGGGTGCGAGT
1 TACATTGATTTAGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGT
* * * * **
57682874 TACATAGATTTGGCTTCGGGCCATGAGATAGGCACTTATGGTGCGAG
1 TACATTGATTTAGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAG
57682921 ACTCCCGAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (48 bp):
TACATTGATTTAGCTTCGGGCCATGATATCGGCACTTCGGGTGCGAGT
Found at i:57689288 original size:25 final size:25
Alignment explanation
Indices: 57689272--57689321 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
57689262 TTAAAATTAA
57689272 AAAATATATAAAATTTTTAAAAAAT
1 AAAATATATAAAATTTTTAAAAAAT
*
57689297 AAAATATAT-AAATTAATTAAAAAAT
1 AAAATATATAAAATT-TTTAAAAAAT
57689322 TTTACATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
AAAATATATAAAATTTTTAAAAAAT
Found at i:57689488 original size:16 final size:16
Alignment explanation
Indices: 57689466--57689507 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
57689456 TTTTAGTTCT
57689466 TTATTTTTTATTACTTA
1 TTATTTTTTATT-CTTA
* *
57689483 -TATTTTTAATTTTTA
1 TTATTTTTTATTCTTA
57689498 TTATTTTTTA
1 TTATTTTTTA
57689508 AAATTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTTTATTCTTA
Found at i:57695490 original size:2 final size:2
Alignment explanation
Indices: 57695485--57695517 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
57695475 TACACACCCT
57695485 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57695518 TTCAATGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57707274 original size:22 final size:23
Alignment explanation
Indices: 57707240--57707288 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
57707230 TACTAACATG
*
57707240 TATATATACTATATATTTTTAT-
1 TATATATACTATACATTTTTATA
*
57707262 TATAT-TACGTATACGTTTTTATA
1 TATATATAC-TATACATTTTTATA
57707285 TATA
1 TATA
57707289 CGCCATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 16 0.70
23 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (23 bp):
TATATATACTATACATTTTTATA
Found at i:57714516 original size:11 final size:11
Alignment explanation
Indices: 57714502--57714541 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
57714492 TATTTTCTCC
57714502 CTATTTTACTA
1 CTATTTTACTA
57714513 CTATTTTACTA
1 CTATTTTACTA
* * *
57714524 TTATGTTGCTA
1 CTATTTTACTA
57714535 CTATTTT
1 CTATTTT
57714542 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:57714795 original size:12 final size:12
Alignment explanation
Indices: 57714765--57714797 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
57714755 TATATATTTT
57714765 AAAATT-ATATA
1 AAAATTAATATA
57714776 AAAA-TAATATA
1 AAAATTAATATA
57714787 AAAATTAATAT
1 AAAATTAATAT
57714798 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:57719941 original size:16 final size:16
Alignment explanation
Indices: 57719920--57719958 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
57719910 TACTATTATT
57719920 CAGGCTTTGTGCCTAG
1 CAGGCTTTGTGCCTAG
57719936 CAGGCTTTGTGCCTAG
1 CAGGCTTTGTGCCTAG
57719952 CAGGCTT
1 CAGGCTT
57719959 AGTGTCAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.13, C:0.26, G:0.31, T:0.31
Consensus pattern (16 bp):
CAGGCTTTGTGCCTAG
Found at i:57719987 original size:38 final size:38
Alignment explanation
Indices: 57719936--57720042 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
57719926 TTGTGCCTAG
* *
57719936 CAGGCTTTGTGCCTAGCAGGCTTAGTGTC-AGTGTTATT
1 CAGGCTTTGTGCCTAGCAGGCTTAGTGCCTA-TGTTACT
* *
57719974 CAGGCTTAGTGCCTAGCAGGCTTAGTACCTATGTTACT
1 CAGGCTTTGTGCCTAGCAGGCTTAGTGCCTATGTTACT
*
57720012 CAGGCTTTGTGCCTAGTAGGCTTAGTGCCTA
1 CAGGCTTTGTGCCTAGCAGGCTTAGTGCCTA
57720043 GTAGGCTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 60 0.98
39 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (38 bp):
CAGGCTTTGTGCCTAGCAGGCTTAGTGCCTATGTTACT
Found at i:57719993 original size:16 final size:16
Alignment explanation
Indices: 57719974--57720056 Score: 67
Period size: 16 Copynumber: 4.8 Consensus size: 16
57719964 CAGTGTTATT
57719974 CAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAG
*
57719990 CAGGCTTAGTACCTATG
1 CAGGCTTAGTGCCTA-G
*
57720007 TTACTCAGGCTTTGTGCCTAG
1 -----CAGGCTTAGTGCCTAG
*
57720028 TAGGCTTAGTGCCTAG
1 CAGGCTTAGTGCCTAG
* *
57720044 TAGGCTTAATGCC
1 CAGGCTTAGTGCC
57720057 AGTGTTATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
16 40 0.73
17 1 0.02
21 1 0.02
22 13 0.24
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (16 bp):
CAGGCTTAGTGCCTAG
Found at i:57720033 original size:54 final size:54
Alignment explanation
Indices: 57719975--57720092 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
57719965 AGTGTTATTC
* * *
57719975 AGGCTTAGTGCCTAGCAGGCTTAGTACCTA-TGTTACTCAGGCTTTGTGCCTAGT
1 AGGCTTAGTGCCTAGCAGGCTTAATACC-AGTGTTACTCAGGCGTAGTGCCTAGT
* * *
57720029 AGGCTTAGTGCCTAGTAGGCTTAATGCCAGTGTTATTCAGGCGTAGTGCCTAGT
1 AGGCTTAGTGCCTAGCAGGCTTAATACCAGTGTTACTCAGGCGTAGTGCCTAGT
*
57720083 ACGCTTAGTG
1 AGGCTTAGTG
57720093 TCGGTGTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 55 0.98
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.32
Consensus pattern (54 bp):
AGGCTTAGTGCCTAGCAGGCTTAATACCAGTGTTACTCAGGCGTAGTGCCTAGT
Found at i:57720076 original size:92 final size:92
Alignment explanation
Indices: 57719919--57720135 Score: 301
Period size: 92 Copynumber: 2.4 Consensus size: 92
57719909 GTACTATTAT
* * * * * *
57719919 TCAGGCTTTGTGCCTAGCAGGCTTTGTGCCTAGCAGGCTTAGTGTCAGTGTTATTCAGGCTTAGT
1 TCAGGCTTTGTGCCTAGTAGGCTTAGTGCCTAGTAGGCTTAATGCCAGTGTTATTCAGGCGTAGT
* *
57719984 GCCTAGCAGGCTTAGTACCTATGTTAC
66 GCCTAGCACGCTTAGTACCGATGTTAC
57720011 TCAGGCTTTGTGCCTAGTAGGCTTAGTGCCTAGTAGGCTTAATGCCAGTGTTATTCAGGCGTAGT
1 TCAGGCTTTGTGCCTAGTAGGCTTAGTGCCTAGTAGGCTTAATGCCAGTGTTATTCAGGCGTAGT
* ** * *
57720076 GCCTAGTACGCTTAGTGTCGGTGTTAT
66 GCCTAGCACGCTTAGTACCGATGTTAC
*
57720103 TCAGGCTTTGTGCCTAGTAAGCTTAGTG-CTAGT
1 TCAGGCTTTGTGCCTAGTAGGCTTAGTGCCTAGT
57720136 GTTATTCTGG
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 5 0.05
92 106 0.95
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.35
Consensus pattern (92 bp):
TCAGGCTTTGTGCCTAGTAGGCTTAGTGCCTAGTAGGCTTAATGCCAGTGTTATTCAGGCGTAGT
GCCTAGCACGCTTAGTACCGATGTTAC
Found at i:57720089 original size:38 final size:38
Alignment explanation
Indices: 57720029--57720179 Score: 167
Period size: 38 Copynumber: 4.0 Consensus size: 38
57720019 TGTGCCTAGT
* *
57720029 AGGCTTAGTGCCTAGTAGGCTTAATGCCAGTGTTATTC
1 AGGCTTAGTGCCTAGTAAGCTTAGTGCCAGTGTTATTC
* * * *
57720067 AGGCGTAGTGCCTAGTACGCTTAGTGTCGGTGTTATTC
1 AGGCTTAGTGCCTAGTAAGCTTAGTGCCAGTGTTATTC
* *
57720105 AGGCTTTGTGCCTAGTAAGCTTAGTGCTAGTGTTATTC
1 AGGCTTAGTGCCTAGTAAGCTTAGTGCCAGTGTTATTC
* * * * * **
57720143 TGGCTTAGTACTTAGCAGGCTTAGTGCTGGTGTTATT
1 AGGCTTAGTGCCTAGTAAGCTTAGTGCCAGTGTTATT
57720180 TAGACTTATT
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 95 1.00
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (38 bp):
AGGCTTAGTGCCTAGTAAGCTTAGTGCCAGTGTTATTC
Found at i:57720109 original size:76 final size:76
Alignment explanation
Indices: 57720029--57720179 Score: 196
Period size: 76 Copynumber: 2.0 Consensus size: 76
57720019 TGTGCCTAGT
* * *
57720029 AGGCTTAGTGCCTAGTAGGCTTAATGCCAGTGTTATTCAGGCGTAGTGCCTAGTACGCTTAGTG-
1 AGGCTTAGTGCCTAGTAAGCTTAATGCCAGTGTTATTCAGGCGTAGTACCTAGCACGCTTAGTGC
57720093 TCGGTGTTATTC
66 T-GGTGTTATTC
* * * * * * *
57720105 AGGCTTTGTGCCTAGTAAGCTTAGTGCTAGTGTTATTCTGGCTTAGTACTTAGCAGGCTTAGTGC
1 AGGCTTAGTGCCTAGTAAGCTTAATGCCAGTGTTATTCAGGCGTAGTACCTAGCACGCTTAGTGC
57720170 TGGTGTTATT
66 TGGTGTTATT
57720180 TAGACTTATT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
76 63 0.98
77 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (76 bp):
AGGCTTAGTGCCTAGTAAGCTTAATGCCAGTGTTATTCAGGCGTAGTACCTAGCACGCTTAGTGC
TGGTGTTATTC
Found at i:57725057 original size:28 final size:28
Alignment explanation
Indices: 57725017--57725072 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
57725007 GATAAAATTC
57725017 TAAGTATGTCGCAACGCGTTCAGCCTTT
1 TAAGTATGTCGCAACGCGTTCAGCCTTT
*
57725045 TAAGTGTGTCGCAACGCGTTCAGCCTTT
1 TAAGTATGTCGCAACGCGTTCAGCCTTT
57725073 ACTACCTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (28 bp):
TAAGTATGTCGCAACGCGTTCAGCCTTT
Found at i:57725446 original size:9 final size:9
Alignment explanation
Indices: 57725432--57725511 Score: 61
Period size: 9 Copynumber: 8.2 Consensus size: 9
57725422 TTTAATTAAT
57725432 TTTTTAAAA
1 TTTTTAAAA
57725441 TTTTTAAAA
1 TTTTTAAAA
**
57725450 TATTAAAAAAA
1 T-TT-TTAAAA
57725461 TATTTTATATAA
1 T-TTTTA-A-AA
*
57725473 TTTTTATAAT
1 TTTTTA-AAA
*
57725483 TTTTTAACA
1 TTTTTAAAA
*
57725492 TTTTTAATA
1 TTTTTAAAA
57725501 TTTTTAAAA
1 TTTTTAAAA
57725510 TT
1 TT
57725512 ATTTTTTAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
9 29 0.50
10 10 0.17
11 16 0.28
12 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:57725503 original size:19 final size:19
Alignment explanation
Indices: 57725459--57725505 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
57725449 ATATTAAAAA
*
57725459 AATATTTTATATAATTTTT
1 AATATTTTTTATAATTTTT
57725478 -ATAATTTTTTA-ACATTTTT
1 AAT-ATTTTTTATA-ATTTTT
57725497 AATATTTTT
1 AATATTTTT
57725506 AAAATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 3 0.12
19 19 0.79
20 2 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
AATATTTTTTATAATTTTT
Found at i:57725530 original size:21 final size:22
Alignment explanation
Indices: 57725492--57725533 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
57725482 TTTTTTAACA
**
57725492 TTTTTAATATTTTTAAAATTAT
1 TTTTTAATATTTAAAAAATTAT
57725514 TTTTTAAT-TTTAAAAAATTA
1 TTTTTAATATTTAAAAAATTA
57725534 ATTAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTAATATTTAAAAAATTAT
Found at i:57727913 original size:39 final size:40
Alignment explanation
Indices: 57727808--57728014 Score: 208
Period size: 39 Copynumber: 5.2 Consensus size: 40
57727798 TATTCGAATG
* * *
57727808 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACT
*
57727849 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACT
* * *
57727889 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
57727928 AAATTCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
57727967 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
57728007 ATATCCGG
1 ATATCCGG
57728015 TTAATTTCCG
Statistics
Matches: 140, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
39 66 0.47
40 46 0.33
41 27 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:57735752 original size:39 final size:40
Alignment explanation
Indices: 57735647--57735853 Score: 226
Period size: 39 Copynumber: 5.2 Consensus size: 40
57735637 TATTCGAATG
* * * *
57735647 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* *
57735688 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* *
57735728 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
57735767 AAATCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57735806 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
57735846 ATATCCGG
1 ATATCCGG
57735854 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
39 68 0.49
40 45 0.32
41 26 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57735787 original size:79 final size:77
Alignment explanation
Indices: 57735647--57735867 Score: 232
Period size: 79 Copynumber: 2.8 Consensus size: 77
57735637 TATTCGAATG
* * * **
57735647 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATATCCGGGTTAAG-TCCGAAGGC
*
57735712 ATTTGTGTGAGTTACT
63 A-TTGTGCGAGTTACT
* *
57735728 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGTTAAGT-CCGAAGGC
57735791 ATTGTGCGAGTTACT
63 ATTGTGCGAGTTACT
* * * *
57735806 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCCGGGTT-AAGTCCGAAGG
57735868 TACGTGATTC
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 36 0.30
79 56 0.47
80 15 0.13
81 12 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGTTAAGTCCGAAGGCATT
GTGCGAGTTACT
Found at i:57742497 original size:3 final size:3
Alignment explanation
Indices: 57742489--57742852 Score: 101
Period size: 3 Copynumber: 121.3 Consensus size: 3
57742479 TCCATACATA
* * * *
57742489 TAT TAT TAT T-T ATAG TAT TAC TAT TAT TAC TAT T-T CTTT TAT GT-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT
* * * * *
57742534 TAT TTT TAT TAA TAT TAC TAT TAT AAT CTCAT T-T TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT TAT
* * * * * * * *
57742580 TCT TAT TAA TA- CAT TAT TAT TAT TTT TAC GA- TAC TAT TAT TAT TCCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * * * * *
57742627 TTT TAT ATAT TAC TGT TAT TGT TA- TAT TAT CAT TAT TAT TAT TAC
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
57742672 TAT CAT TAT TAC TAT TAT TGT TAT TTT TAT TTT TAT TAC TAT AACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * *
57742718 T-T T-T TAT TAT TAC TAT TAT TGT TAT TTT TAT TAA CA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
57742763 TAT TTT TAC TA- TAT TAC TAT T-T CCTAT T-T TA- TAT ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT -TAT TAT TAT
* * * * *
57742807 TGA- TAT TAA CAT ATAC TAT TAT AAT TAT TAT TGAT CTTT TAT TAT T
1 T-AT TAT TAT TAT -TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT T
57742853 CTCTTACATC
Statistics
Matches: 253, Mismatches: 79, Indels: 58
0.65 0.20 0.15
Matches are distributed among these distances:
2 22 0.09
3 209 0.83
4 18 0.07
5 4 0.02
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:57742579 original size:14 final size:15
Alignment explanation
Indices: 57742562--57742603 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
57742552 TATTATAATC
57742562 TCATT-TTATTATTA
1 TCATTATTATTATTA
* *
57742576 TCATTCTTATTAATA
1 TCATTATTATTATTA
57742591 -CATTATTATTATT
1 TCATTATTATTATT
57742604 TTTACGATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
TCATTATTATTATTA
Found at i:57742762 original size:20 final size:19
Alignment explanation
Indices: 57742727--57742784 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
57742717 TTTTTTATTA
*
57742727 TTACTATTATTGTTATTTTT
1 TTACTA-TATTATTATTTTT
57742747 ATTAAC-ATATTATTATTATTT
1 -TT-ACTATATTATTATT-TTT
*
57742768 TTACTATATTACTATTT
1 TTACTATATTATTATTT
57742785 CCTATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
19 3 0.09
20 21 0.66
21 6 0.19
22 2 0.06
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (19 bp):
TTACTATATTATTATTTTT
Found at i:57746615 original size:9 final size:9
Alignment explanation
Indices: 57746602--57746648 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
57746592 GCATTTTTTA
57746602 CATTCATTG
1 CATTCATTG
*
57746611 TATTCATTG
1 CATTCATTG
*
57746620 CATTTATTG
1 CATTCATTG
57746629 CATTCATTG
1 CATTCATTG
57746638 CATTCA-TG
1 CATTCATTG
57746646 CAT
1 CAT
57746649 CAACATTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 5 0.15
9 29 0.85
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (9 bp):
CATTCATTG
Found at i:57746632 original size:27 final size:26
Alignment explanation
Indices: 57746592--57746648 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
57746582 TAGAATCAAC
* *
57746592 GCATTTTTTACATTCATTGTATTCATT
1 GCATTTATTACATTCATTGCATTCA-T
*
57746619 GCATTTATTGCATTCATTGCATTCAT
1 GCATTTATTACATTCATTGCATTCAT
57746645 GCAT
1 GCAT
57746649 CAACATTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.49
Consensus pattern (26 bp):
GCATTTATTACATTCATTGCATTCAT
Found at i:57754722 original size:44 final size:44
Alignment explanation
Indices: 57754578--57754730 Score: 148
Period size: 44 Copynumber: 3.5 Consensus size: 44
57754568 AATCTTGTCT
57754578 CCCTAAGCAGT-GGGGAACAGATCTAAGATGATGGGCCTTAACC
1 CCCTAAGCAGTAGGGGAACAGATCTAAGATGATGGGCCTTAACC
* * * * * ** ** ** *
57754621 CCCTAAGCAGTAAGGTAACAG-GCTGGAGAATTACAGATCTTGTCT
1 CCCTAAGCAGTAGGGGAACAGATCT-AAG-ATGATGGGCCTTAACC
57754666 CCCTAAGCAGTAGGGGAACAGATCTAAGATGATGGGCCTTAACC
1 CCCTAAGCAGTAGGGGAACAGATCTAAGATGATGGGCCTTAACC
* *
57754710 CCCTAAGTAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGGAACAG
57754731 GCTGGAGAAT
Statistics
Matches: 80, Mismatches: 26, Indels: 7
0.71 0.23 0.06
Matches are distributed among these distances:
43 13 0.16
44 36 0.45
45 29 0.36
46 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGGAACAGATCTAAGATGATGGGCCTTAACC
Found at i:57754727 original size:89 final size:89
Alignment explanation
Indices: 57754523--57754939 Score: 569
Period size: 89 Copynumber: 4.8 Consensus size: 89
57754513 TGAATTTGTA
* * * *
57754523 AGCCTTAACCTCCAAAGTAGTAGGGTAACAGGCTGGAGAATTACAAATCTTGTCTCCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
57754588 T-GGGGAACAGATCTAAGATGATG
66 TAGGGGAACAGATCTAAGATGATG
* *
57754611 GGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
57754676 TAGGGGAACAGATCTAAGATGATG
66 TAGGGGAACAGATCTAAGATGATG
* * *
57754700 GGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
* * * * *
57754765 TAGTGGAGCAGATCGAAGACGGTG
66 TAGGGGAACAGATCTAAGATGATG
*
57754789 AGCCTTAACCCCCTAAGCAATAGGGTAACAGGCT---GAATTACAGATCTTGTCTCCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
* * * *
57754851 TAGTGGAGCAGATCAAAGATGGTG
66 TAGGGGAACAGATCTAAGATGATG
* * * * *
57754875 AGCTTTAACACCCTAAGCAGTAGGGTAACAGGC--CA-AATTATAGACCTTGTCTCCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
57754937 TAG
66 TAG
57754940 TGGCCGAATT
Statistics
Matches: 301, Mismatches: 25, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
86 107 0.36
88 60 0.20
89 134 0.45
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (89 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
TAGGGGAACAGATCTAAGATGATG
Found at i:57754903 original size:175 final size:176
Alignment explanation
Indices: 57754523--57754942 Score: 564
Period size: 175 Copynumber: 2.4 Consensus size: 176
57754513 TGAATTTGTA
* * *
57754523 AGCCTTAAC-CTCCAAAGTAGTAGGGTAACAGGCTGGAGAATTACAAATCTTGTCTCCCTAAGCA
1 AGCCTTAACAC-CCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCA
* * * * *
57754587 GT-GGGGAACAGATCTAAGATGATGGGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTGGAGAA
65 GTAGTGGAACAGATCGAAGACGATGAGCCTTAACCCCCTAAGCAATAAGGTAACAGGCT-G-GAA
*
57754651 TTACAGATCTTGTCTCCCTAAGCAGTAGGGGAACAGATCTAAGATGATG
128 TTACAGATCTTGTCTCCCTAAGCAGTAGGGGAACAGATCAAAGATGATG
* * * *
57754700 GGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAA
1 AGCCTTAACACCCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
* * *
57754765 TAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCT-GAATTA
66 TAGTGGAACAGATCGAAGACGATGAGCCTTAACCCCCTAAGCAATAAGGTAACAGGCTGGAATTA
* * *
57754829 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTG
131 CAGATCTTGTCTCCCTAAGCAGTAGGGGAACAGATCAAAGATGATG
* * * *
57754875 AGCTTTAACACCCTAAGCAGTAGGGTAACAGGC--CA-AATTATAGACCTTGTCTCCCTAAGCAG
1 AGCCTTAACACCCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
57754937 TAGTGG
66 TAGTGG
57754943 CCGAATTACA
Statistics
Matches: 217, Mismatches: 24, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
172 30 0.14
173 1 0.00
175 77 0.35
177 60 0.28
178 49 0.23
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (176 bp):
AGCCTTAACACCCTAAGCAGTAGGGTAACAGGCTGGAGAATTACAGATCTTGTCTCCCTAAGCAG
TAGTGGAACAGATCGAAGACGATGAGCCTTAACCCCCTAAGCAATAAGGTAACAGGCTGGAATTA
CAGATCTTGTCTCCCTAAGCAGTAGGGGAACAGATCAAAGATGATG
Found at i:57754960 original size:36 final size:36
Alignment explanation
Indices: 57754905--57754978 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
57754895 TAGGGTAACA
*
57754905 GGCCAAATTATAGACCTTGTCTCCCTAAGCAGTAGT
1 GGCCAAATTACAGACCTTGTCTCCCTAAGCAGTAGT
* *
57754941 GGCCGAATTACAGATCTTGTCTCCCTAAGCAGTAGT
1 GGCCAAATTACAGACCTTGTCTCCCTAAGCAGTAGT
57754977 GG
1 GG
57754979 AGCAGATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (36 bp):
GGCCAAATTACAGACCTTGTCTCCCTAAGCAGTAGT
Found at i:57755050 original size:122 final size:122
Alignment explanation
Indices: 57754823--57755064 Score: 414
Period size: 122 Copynumber: 2.0 Consensus size: 122
57754813 GTAACAGGCT
*
57754823 GAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAGCTTTAACACCC
1 GAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAGCCTTAACACCC
* *
57754888 TAAGCAGTAGGGTAACAGGCCAAATTATAGACCTTGTCTCCCTAAGCAGTAGTGGCC
66 TAAGCAGTAGGGTAACAGGCCAAATTACAGACCTTATCTCCCTAAGCAGTAGTGGCC
57754945 GAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAGCCTTAAC-CCC
1 GAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAGCCTTAACACCC
* * *
57755009 TTAAGCAGTAGGGTAACATGCCAAATTACAGATCTTATCTCCCTAAGTAGTAGTGG
66 -TAAGCAGTAGGGTAACAGGCCAAATTACAGACCTTATCTCCCTAAGCAGTAGTGG
57755065 AGTAGATCAA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
121 3 0.03
122 110 0.97
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (122 bp):
GAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAGCCTTAACACCC
TAAGCAGTAGGGTAACAGGCCAAATTACAGACCTTATCTCCCTAAGCAGTAGTGGCC
Found at i:57755091 original size:86 final size:86
Alignment explanation
Indices: 57754946--57755106 Score: 259
Period size: 86 Copynumber: 1.9 Consensus size: 86
57754936 GTAGTGGCCG
* ** *
57754946 AATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAGCCTTAACCCCTT
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGTGAGCCTTAACCCCCT
57755011 AAGCAGTAGGGTAACATGCCA
66 AAGCAGTAGGGTAACATGCCA
* * *
57755032 AATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCAAAGACAGTGAGTCTTAACCCCCT
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGTGAGCCTTAACCCCCT
57755097 AAGCAGTAGG
66 AAGCAGTAGG
57755107 ATAAAAGGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (86 bp):
AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGTGAGCCTTAACCCCCT
AAGCAGTAGGGTAACATGCCA
Found at i:57755099 original size:208 final size:208
Alignment explanation
Indices: 57754737--57755115 Score: 598
Period size: 208 Copynumber: 1.8 Consensus size: 208
57754727 ACAGGCTGGA
*
57754737 GAATTACAGATCTTGTCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCC
1 GAATTACAGATCTTGTCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCC
** *
57754802 TAAGCAATAGGGTAACAGGCTGAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAA
66 TAAGCAATAGGGTAACAGGCCAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA
** * *
57754867 AGATGGTGAGCTTTAACACCCTAAGCAGTAGGGTAACAGGCCAAATTATAGACCTTGTCTCCCTA
131 AGACAGTGAGCTTTAACACCCTAAGCAGTAGGATAAAAGGCCAAATTATAGACCTTGTCTCCCTA
57754932 AGCAGTAGTGGCC
196 AGCAGTAGTGGCC
* * *
57754945 GAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAGCCTTAACCCCT
1 GAATTACAGATCTTGTCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCC
* * * *
57755010 TAAGCAGTAGGGTAACATGCCAAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCAA
66 TAAGCAATAGGGTAACAGGCCAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA
*
57755075 AGACAGTGAG-TCTTAACCCCCTAAGCAGTAGGATAAAAGGC
131 AGACAGTGAGCT-TTAACACCCTAAGCAGTAGGATAAAAGGC
57755116 TGGAAATTAC
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
207 1 0.01
208 153 0.99
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (208 bp):
GAATTACAGATCTTGTCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCC
TAAGCAATAGGGTAACAGGCCAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA
AGACAGTGAGCTTTAACACCCTAAGCAGTAGGATAAAAGGCCAAATTATAGACCTTGTCTCCCTA
AGCAGTAGTGGCC
Found at i:57756658 original size:3 final size:3
Alignment explanation
Indices: 57756650--57756707 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
57756640 ATCTAAAATG
* *
57756650 TTA TTA TTA CTC TTA TT- TTCA TTA TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
57756694 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
57756708 GTACTTGTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.88
4 2 0.04
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:57756788 original size:16 final size:16
Alignment explanation
Indices: 57756764--57756797 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57756754 ATTTCTATTA
*
57756764 TTATATATATATATAT
1 TTATATATATACATAT
*
57756780 TTATGTATATACATAT
1 TTATATATATACATAT
57756796 TT
1 TT
57756798 TTCTTTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
TTATATATATACATAT
Found at i:57756931 original size:14 final size:15
Alignment explanation
Indices: 57756885--57757041 Score: 61
Period size: 17 Copynumber: 9.9 Consensus size: 15
57756875 TCTTTTATGT
*
57756885 TTATTTTTATTAAT-A
1 TTATTATTATT-ATCA
*
57756900 TTATTATTATAATCTCA
1 TTATTATTAT--TATCA
57756917 TT-TTATTATTATCA
1 TTATTATTATTATCA
** *
57756931 TTCCTATTAATA-CA
1 TTATTATTATTATCA
* *
57756945 TTATTATTATTTTTA
1 TTATTATTATTATCA
* *
57756960 CTATACTATTATTATTCC
1 -T-TATTATTATTA-TCA
*
57756978 TTTTTATATATTA-CTA
1 TTATTAT-TATTATC-A
*
57756994 TTATTGTTATATTATCA
1 TTATT-AT-TATTATCA
57757011 TTATTATTATTACTATCA
1 TTATTATTA-T--TATCA
*
57757029 TTATTACTATTAT
1 TTATTATTATTAT
57757042 TGTTATTTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
14 16 0.15
15 23 0.22
16 19 0.18
17 33 0.31
18 15 0.14
ACGTcount: A:0.31, C:0.10, G:0.01, T:0.59
Consensus pattern (15 bp):
TTATTATTATTATCA
Found at i:57756970 original size:23 final size:21
Alignment explanation
Indices: 57756944--57757061 Score: 78
Period size: 20 Copynumber: 5.5 Consensus size: 21
57756934 CTATTAATAC
57756944 ATTATTATTATTTTTACTATACT
1 ATTATTATTATTTTTA-TATA-T
**
57756967 ATTATTATTCCTTTT-TATAT
1 ATTATTATTATTTTTATATAT
* *
57756987 ATTACTATTATTGTTATAT-T
1 ATTATTATTATTTTTATATAT
* *
57757007 ATCATTATTATTATTACTATCATT
1 ATTATTATTATTTTTA-TAT-A-T
* * * *
57757031 ATTACTATTATTGTTATTTTT
1 ATTATTATTATTTTTATATAT
*
57757052 ATTTTTATTA
1 ATTATTATTA
57757062 CTATAACTTT
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
20 26 0.35
21 19 0.26
23 15 0.20
24 14 0.19
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTATTATTATTTTTATATAT
Found at i:57757081 original size:3 final size:3
Alignment explanation
Indices: 57756841--57757061 Score: 96
Period size: 3 Copynumber: 73.7 Consensus size: 3
57756831 TCCATACATA
* * * *
57756841 TAT TAT TAT T-T ATAG TAT TAC TAT TAT TAC TAT T-T CTTT TAT GT-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT
* * * *
57756886 TAT TTT TAT TAA TAT TAT TAT TAT AAT CTCAT T-T TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT TAT
** * * * * * *
57756932 TCC TAT TAA TA- CAT TAT TAT TAT TTT TAC TA- TAC TAT TAT TAT TCCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * * * *
57756979 TTT TAT ATAT TAC TAT TAT TGT TA- TAT TAT CAT TAT TAT TAT TAC
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
57757024 TAT CAT TAT TAC TAT TAT TGT TAT TTT TAT TTT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
57757062 CTATAACTTT
Statistics
Matches: 157, Mismatches: 47, Indels: 28
0.68 0.20 0.12
Matches are distributed among these distances:
2 10 0.06
3 137 0.87
4 8 0.05
5 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:57757124 original size:16 final size:17
Alignment explanation
Indices: 57757091--57757128 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
57757081 ACTACTACTG
57757091 TTATTTTTATTAACATA
1 TTATTTTTATTAACATA
57757108 TTATTTTT-TT-ACTATA
1 TTATTTTTATTAAC-ATA
57757124 TTATT
1 TTATT
57757129 ATTTCCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.10
16 10 0.50
17 8 0.40
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTTTATTAACATA
Done.