Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 288 of 444
Found at i:83202765 original size:14 final size:14
Alignment explanation
Indices: 83202743--83202792 Score: 91
Period size: 14 Copynumber: 3.6 Consensus size: 14
83202733 TCAATTTCAT
83202743 TAGAAGAACTTTAC
1 TAGAAGAACTTTAC
*
83202757 TAAAAGAACTTTAC
1 TAGAAGAACTTTAC
83202771 TAGAAGAACTTTAC
1 TAGAAGAACTTTAC
83202785 TAGAAGAA
1 TAGAAGAA
83202793 AATTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (14 bp):
TAGAAGAACTTTAC
Found at i:83209555 original size:26 final size:27
Alignment explanation
Indices: 83209515--83209584 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
83209505 TATAATAAAT
**
83209515 TTTAAAATAGGTAATATA-GGCG-AAAG
1 TTTAAAATAAATAATATACGG-GAAAAG
*
83209541 TTTGAAATAAATAATATACGGGAAAAG
1 TTTAAAATAAATAATATACGGGAAAAG
*
83209568 TTTAAAATGAATAATAT
1 TTTAAAATAAATAATAT
83209585 GTAAAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.43
27 21 0.57
ACGTcount: A:0.50, C:0.03, G:0.17, T:0.30
Consensus pattern (27 bp):
TTTAAAATAAATAATATACGGGAAAAG
Found at i:83209606 original size:26 final size:27
Alignment explanation
Indices: 83209568--83209664 Score: 99
Period size: 26 Copynumber: 3.6 Consensus size: 27
83209558 ACGGGAAAAG
*
83209568 TTTAAAATGAATAATATGTAAAAT-AA
1 TTTAAAATAAATAATATGTAAAATGAA
* * *
83209594 TTTAAGATAAATAATATAT-AAATGAG
1 TTTAAAATAAATAATATGTAAAATGAA
* *
83209620 TTTAAAATAAATATTATGTAAAAAGAAA
1 TTTAAAATAAATAATATGTAAAATG-AA
* *
83209648 CTTAAAATAAGTAATAT
1 TTTAAAATAAATAATAT
83209665 ACAAGACATC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
25 4 0.07
26 33 0.59
27 4 0.07
28 15 0.27
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTAAAATAAATAATATGTAAAATGAA
Found at i:83211825 original size:72 final size:72
Alignment explanation
Indices: 83211683--83211825 Score: 198
Period size: 72 Copynumber: 2.0 Consensus size: 72
83211673 TCTATATTTT
* * *** *
83211683 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTTATTTTGACGTGTGTGTGTGTATATAT
1 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTTATTTTGACGTATATAAATATATATAT
83211748 ATATATG
66 ATATATG
*
83211755 ATGTATCTTGGCAAAATCAATGTTATTTCCAA-TTTTTTATTTTGATGTATATAAATATATATGA
1 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTTATTTTGACGTATATAAATATATAT-A
*
83211819 TGTATAT
65 TATATAT
83211826 CACTTTTTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 23 0.37
72 39 0.63
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (72 bp):
ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTTATTTTGACGTATATAAATATATATAT
ATATATG
Found at i:83216212 original size:48 final size:49
Alignment explanation
Indices: 83216154--83216247 Score: 138
Period size: 48 Copynumber: 1.9 Consensus size: 49
83216144 GGTATAATTC
* * *
83216154 TTTGGCAAAAAATATTTATATAAAAAA-TGTAAGAAAGTTAGTAGAATCT
1 TTTGGCAAAAAATATTTAGAAAAAAAATTG-AAGAAAGTTAATAGAATCT
83216203 TTTGG-AAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAA
1 TTTGGCAAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAA
83216248 AGATAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
48 34 0.83
49 7 0.17
ACGTcount: A:0.53, C:0.02, G:0.15, T:0.30
Consensus pattern (49 bp):
TTTGGCAAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAATCT
Found at i:83216958 original size:31 final size:31
Alignment explanation
Indices: 83216895--83216958 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
83216885 AAAATTTCAA
* *
83216895 AATTTAAAAAGTACAGAAATTAAGAATTACC
1 AATTTAAAAAGTAAAGAAACTAAGAATTACC
* *
83216926 AATTTAAAAAGTAAAGGAGCTAA-AATTGACC
1 AATTTAAAAAGTAAAGAAACTAAGAATT-ACC
83216957 AA
1 AA
83216959 ATAAAAGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.23
Consensus pattern (31 bp):
AATTTAAAAAGTAAAGAAACTAAGAATTACC
Found at i:83219107 original size:17 final size:17
Alignment explanation
Indices: 83219060--83219160 Score: 60
Period size: 17 Copynumber: 5.9 Consensus size: 17
83219050 TGTTCATATG
* * *
83219060 AAATAACAGTTCTTACC
1 AAATAACAGTTCATGCA
*
83219077 AAATGAA-AGCTCATGCA
1 AAAT-AACAGTTCATGCA
* ***
83219094 AAATAATAGTTCATTTG
1 AAATAACAGTTCATGCA
** * *
83219111 AAATATTAGTTCATACT
1 AAATAACAGTTCATGCA
* *
83219128 GAATAACAATTCATGCA
1 AAATAACAGTTCATGCA
83219145 AAATAACAGTTCATGC
1 AAATAACAGTTCATGC
83219161 TCTATCATAA
Statistics
Matches: 62, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
16 2 0.03
17 58 0.94
18 2 0.03
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.30
Consensus pattern (17 bp):
AAATAACAGTTCATGCA
Found at i:83227040 original size:23 final size:22
Alignment explanation
Indices: 83226987--83227092 Score: 71
Period size: 23 Copynumber: 4.7 Consensus size: 22
83226977 AGTGGATGGG
83226987 GAAGAAGAAGAGGGAAAGAAAGA
1 GAAGAA-AAGAGGGAAAGAAAGA
83227010 GAAGAAAAGAGGGGAAAAGAAA-A
1 GAAGAAAAGA-GGG-AAAGAAAGA
* * *
83227033 G--GAAAA-AAGG-AAGAAGGG
1 GAAGAAAAGAGGGAAAGAAAGA
83227051 GAAGGAAAA-AGGGAAGAGAAAGA
1 GAA-GAAAAGAGGGAA-AGAAAGA
83227074 GAAAGGAAAAGAGAGGAAA
1 G-AA-GAAAAGAG-GGAAA
83227093 AGGGAAAAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
17 5 0.08
18 1 0.02
19 2 0.03
20 1 0.02
21 13 0.20
22 5 0.08
23 17 0.26
24 15 0.23
25 3 0.05
26 4 0.06
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (22 bp):
GAAGAAAAGAGGGAAAGAAAGA
Found at i:83227098 original size:17 final size:17
Alignment explanation
Indices: 83227057--83227106 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
83227047 AGGGGAAGGA
* *
83227057 AAAAGGGAAGAGA-AAG
1 AAAAGGGAAAAGAGAGG
83227073 AGAAA-GGAAAAGAGAGG
1 A-AAAGGGAAAAGAGAGG
83227090 AAAAGGGAAAAGAGAGG
1 AAAAGGGAAAAGAGAGG
83227107 GGAAAGGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 11 0.38
17 18 0.62
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (17 bp):
AAAAGGGAAAAGAGAGG
Found at i:83233203 original size:2 final size:2
Alignment explanation
Indices: 83233198--83233243 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
83233188 AAAAAAACTA
*
83233198 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83233240 AT AT
1 AT AT
83233244 TTCGTGGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:83234371 original size:29 final size:30
Alignment explanation
Indices: 83234321--83234378 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
83234311 TTCTAAAATT
83234321 CCCTTTGCTACCGTTTTCTCTTCTCTTTTC
1 CCCTTTGCTACCGTTTTCTCTTCTCTTTTC
* *
83234351 CCCTTT-CT-CCGTTGTTTTCTTCTTTTTT
1 CCCTTTGCTACCGTT-TTCTCTTCTCTTTT
83234379 TGTCGATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.20
29 14 0.56
30 6 0.24
ACGTcount: A:0.02, C:0.33, G:0.07, T:0.59
Consensus pattern (30 bp):
CCCTTTGCTACCGTTTTCTCTTCTCTTTTC
Found at i:83238705 original size:20 final size:21
Alignment explanation
Indices: 83238657--83238705 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
83238647 TCAAATATGA
83238657 ATTATTT-GAAAATCATAAAAT
1 ATTATTTAG-AAATCATAAAAT
83238678 ATTATTTAGAAATCATAAAAT
1 ATTATTTAGAAATCATAAAAT
83238699 A-TATTTA
1 ATTATTTA
83238706 AAGTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.22
21 20 0.74
22 1 0.04
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTATTTAGAAATCATAAAAT
Found at i:83239599 original size:9 final size:9
Alignment explanation
Indices: 83239587--83239772 Score: 64
Period size: 9 Copynumber: 19.9 Consensus size: 9
83239577 CAATTACTTG
83239587 AATTTTTAT
1 AATTTTTAT
83239596 AATTTTATAAT
1 AATTTT-T-AT
*
83239607 ATATATTTTAA
1 A-AT-TTTTAT
*
83239618 AAATTTTAT
1 AATTTTTAT
* *
83239627 GACTTTTAT
1 AATTTTTAT
83239636 -ATTTTTAAT
1 AATTTTT-AT
*
83239645 AATTTGTAAAT
1 AATTT-T-TAT
83239656 AATTTTTAT
1 AATTTTTAT
83239665 AA---TT-T
1 AATTTTTAT
*
83239670 CATTTTTAT
1 AATTTTTAT
*
83239679 TATTTTTAAT
1 AATTTTT-AT
83239689 AA--TTTAT
1 AATTTTTAT
**
83239696 -ATTTTTGG
1 AATTTTTAT
83239704 AATTTTTAAT
1 AATTTTT-AT
*
83239714 AAATTTTAT
1 AATTTTTAT
*
83239723 AATTATTTAA
1 AATT-TTTAT
*
83239733 AATATTTTGT
1 AAT-TTTTAT
*
83239743 GATTTTTAGAT
1 AATTTTT--AT
83239754 AATATTTTAAT
1 AAT-TTTT-AT
83239765 AATTTTTA
1 AATTTTTA
83239773 CTAACCACAT
Statistics
Matches: 131, Mismatches: 24, Indels: 44
0.66 0.12 0.22
Matches are distributed among these distances:
5 2 0.02
6 3 0.02
7 2 0.02
8 13 0.10
9 47 0.36
10 32 0.24
11 22 0.17
12 7 0.05
13 3 0.02
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
AATTTTTAT
Found at i:83239614 original size:23 final size:23
Alignment explanation
Indices: 83239588--83239669 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
83239578 AATTACTTGA
83239588 ATTTTTATAATTTTATAATATAT
1 ATTTTTATAATTTTATAATATAT
* * * *
83239611 ATTTTAAAAATTTTATGACTTTTAT
1 ATTTTTATAATTTTAT-A-ATATAT
*
83239636 ATTTTTAATAA-TTTGTAA-ATA-
1 ATTTTT-ATAATTTTATAATATAT
83239657 ATTTTTATAATTT
1 ATTTTTATAATTT
83239670 CATTTTTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
20 4 0.09
21 8 0.17
22 2 0.04
23 14 0.30
24 2 0.04
25 13 0.28
26 3 0.07
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTTTATAATTTTATAATATAT
Found at i:83239758 original size:21 final size:20
Alignment explanation
Indices: 83239590--83239772 Score: 92
Period size: 20 Copynumber: 8.7 Consensus size: 20
83239580 TTACTTGAAT
83239590 TTTTATAATTTTATAATATATA
1 TTTTATAATTTT-TAATA-ATA
* * * *
83239612 TTTTAAAAATTTT-ATGA-C
1 TTTTATAATTTTTAATAATA
83239630 TTTTAT-ATTTTTAATAAT-
1 TTTTATAATTTTTAATAATA
*
83239648 TTGTAAATAATTTTT-ATAATTTCA
1 TT-T-TATAATTTTTAATAA--T-A
*
83239672 TTTTTATTATTTTTAATAATTTA
1 -TTTTATAATTTTTAATAA--TA
*
83239695 TATTTTTGGAATTTTTAATAA-A
1 T-TTTAT--AATTTTTAATAATA
83239717 TTTTATAATTATTTAA-AATA
1 TTTTATAATT-TTTAATAATA
* *
83239737 TTTTGTGATTTTTAGATAATA
1 TTTTATAATTTTTA-ATAATA
83239758 TTTTAATAATTTTTA
1 TTTT-ATAATTTTTA
83239773 CTAACCACAT
Statistics
Matches: 125, Mismatches: 17, Indels: 38
0.69 0.09 0.21
Matches are distributed among these distances:
17 5 0.04
18 10 0.08
19 12 0.10
20 23 0.18
21 19 0.15
22 22 0.18
23 13 0.10
24 8 0.06
25 13 0.10
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTATAATTTTTAATAATA
Found at i:83247531 original size:31 final size:31
Alignment explanation
Indices: 83247493--83247556 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
83247483 CCTTTTCATA
83247493 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
83247524 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
83247555 TT
1 TT
83247557 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:83247794 original size:24 final size:24
Alignment explanation
Indices: 83247748--83247890 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
83247738 GCTTTATCAT
*
83247748 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
83247773 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
83247797 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
83247820 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
83247844 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
83247868 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
83247891 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 25 0.23
24 73 0.66
25 13 0.12
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:83247827 original size:47 final size:48
Alignment explanation
Indices: 83247748--83247889 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 48
83247738 GCTTTATCAT
*
83247748 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
**
83247797 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
83247844 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
83247890 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 2 0.02
47 42 0.48
48 31 0.36
49 12 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:83247842 original size:71 final size:72
Alignment explanation
Indices: 83247747--83247890 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 72
83247737 TGCTTTATCA
*
83247747 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCAATAACTGGGGCATA
83247811 AGCCCTTT
65 AGCCCTTT
* **
83247819 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
83247882 AGCCCTTT
65 AGCCCTTT
83247890 T
1 T
83247891 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
70 2 0.03
71 51 0.77
72 13 0.20
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:83247966 original size:20 final size:20
Alignment explanation
Indices: 83247941--83248000 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
83247931 TATGATTACC
83247941 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
83247961 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
83247981 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
83248001 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:83248075 original size:25 final size:25
Alignment explanation
Indices: 83248043--83248090 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83248033 ATACATAAAC
* * *
83248043 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
83248068 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
83248091 CGTAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:83250045 original size:20 final size:22
Alignment explanation
Indices: 83250007--83250046 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
83249997 TTCAAATACG
*
83250007 ATAATATATATATATTTTCCTA
1 ATAATATATATATAATTTCCTA
83250029 ATAATA-AT-TATAATTTCC
1 ATAATATATATATAATTTCC
83250047 ATAAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATATATATAATTTCCTA
Found at i:83251312 original size:16 final size:17
Alignment explanation
Indices: 83251293--83251325 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
83251283 CGGTATTTCA
83251293 CATTTTTATT-ATTTAT
1 CATTTTTATTAATTTAT
*
83251309 CATTTTTCTTAATTTAT
1 CATTTTTATTAATTTAT
83251326 TTATTATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
CATTTTTATTAATTTAT
Found at i:83254012 original size:17 final size:16
Alignment explanation
Indices: 83253982--83254021 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
83253972 AAAAATCAAC
* *
83253982 ATAAATATATAAACGA
1 ATAAATATACAAACAA
83253998 ATAACATATACAAACAA
1 ATAA-ATATACAAACAA
83254015 ATAAATA
1 ATAAATA
83254022 AATGAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAAATATACAAACAA
Found at i:83256319 original size:37 final size:37
Alignment explanation
Indices: 83256278--83256357 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
83256268 CGTTAAAAAG
83256278 TAGAAATTTTAAATATATTTTCTCATAGATTCTTTTC
1 TAGAAATTTTAAATATATTTTCTCATAGATTCTTTTC
83256315 TAGAAATTTTAAATATATTTTCTCATAGATTCTTTTC
1 TAGAAATTTTAAATATATTTTCTCATAGATTCTTTTC
*
83256352 TGGAAA
1 TAGAAA
83256358 AGTTTTCATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (37 bp):
TAGAAATTTTAAATATATTTTCTCATAGATTCTTTTC
Found at i:83259199 original size:2 final size:2
Alignment explanation
Indices: 83259192--83259227 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
83259182 CGCCTAAAAC
*
83259192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83259228 ATACAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83260493 original size:2 final size:2
Alignment explanation
Indices: 83260445--83260483 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
83260435 TCTAGTCCAA
* * *
83260445 CT CT CT CC CT CT CT CT CT CT CA CT CT CT CT CC CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
83260484 GTATTCTCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.56, G:0.00, T:0.41
Consensus pattern (2 bp):
CT
Found at i:83267602 original size:22 final size:22
Alignment explanation
Indices: 83267577--83267621 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
83267567 TTTAATAAAA
83267577 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
83267599 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
83267621 A
1 A
83267622 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:83272202 original size:22 final size:22
Alignment explanation
Indices: 83272174--83272218 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
83272164 TTAATAAAAA
83272174 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
83272196 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
83272218 A
1 A
83272219 CATTAACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:83273915 original size:27 final size:27
Alignment explanation
Indices: 83273877--83273945 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
83273867 ATAGGTGATG
83273877 TTTAGTTTTTGTGTGGTTTCTATTTGC
1 TTTAGTTTTTGTGTGGTTTCTATTTGC
83273904 TTTAGTTTTTGTGTGGTTTCTATTTGC
1 TTTAGTTTTTGTGTGGTTTCTATTTGC
83273931 TTTAGTTTTTGTGTG
1 TTTAGTTTTTGTGTG
83273946 TTGGTTTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.07, C:0.06, G:0.23, T:0.64
Consensus pattern (27 bp):
TTTAGTTTTTGTGTGGTTTCTATTTGC
Found at i:83274152 original size:41 final size:41
Alignment explanation
Indices: 83274090--83274173 Score: 134
Period size: 41 Copynumber: 2.0 Consensus size: 41
83274080 TTATGGCACA
83274090 TTGTAATTTCTATTCTGTCTTCTATTAATGTTAAAAAAATT
1 TTGTAATTTCTATTCTGTCTTCTATTAATGTTAAAAAAATT
* *
83274131 TTGTAATTTGTATTC-GATCTTCTATTAATGTTAAAAAAGTT
1 TTGTAATTTCTATTCTG-TCTTCTATTAATGTTAAAAAAATT
83274172 TT
1 TT
83274174 ACAATGTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (41 bp):
TTGTAATTTCTATTCTGTCTTCTATTAATGTTAAAAAAATT
Found at i:83274601 original size:20 final size:21
Alignment explanation
Indices: 83274565--83274604 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
83274555 TTGGTTTGGT
*
83274565 TTGATTCTTGGTTTTTTTATA
1 TTGATTCTTGATTTTTTTATA
83274586 TTGATT-TTGATTTTTTTAT
1 TTGATTCTTGATTTTTTTAT
83274605 TTTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.70
Consensus pattern (21 bp):
TTGATTCTTGATTTTTTTATA
Found at i:83282279 original size:40 final size:40
Alignment explanation
Indices: 83282224--83282303 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
83282214 AACACGAGGA
*
83282224 ACACTTGAGGATAATTACGCAAACTCTTTGTGAGAAAAAT
1 ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
83282264 ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
1 ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
83282304 TTGTATGCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (40 bp):
ACACTTGAGGATAATTACACAAACTCTTTGTGAGAAAAAT
Found at i:83288914 original size:31 final size:31
Alignment explanation
Indices: 83288850--83288923 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
83288840 GGATAATTTC
* * * *
83288850 TTAACCAGCCACATCCCAATAAGTCTCATAA
1 TTAACCAGCCACACCCCAATAAATCCCACAA
* *
83288881 TTAATCAGCCACACCCCACTAAATCCCACAA
1 TTAACCAGCCACACCCCAATAAATCCCACAA
*
83288912 TTAACCACCCAC
1 TTAACCAGCCAC
83288924 TAGATTCCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.38, C:0.39, G:0.04, T:0.19
Consensus pattern (31 bp):
TTAACCAGCCACACCCCAATAAATCCCACAA
Found at i:83289817 original size:152 final size:152
Alignment explanation
Indices: 83289541--83289845 Score: 567
Period size: 152 Copynumber: 2.0 Consensus size: 152
83289531 TGAAATATTT
* *
83289541 AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTCAAATGTAGTTGTATTGCTGCCAAAT
1 AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTCAAATGTAATTGTATTGATGCCAAAT
83289606 ACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAACT
66 ACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAACT
83289671 TGCATCTGAATAAGGGAATGTC
131 TGCATCTGAATAAGGGAATGTC
*
83289693 AAGTACCACCAAACACTTAATCAATGTAGGGTATAA-TTCTAAATGTAATTGTATTGATGCCAAA
1 AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTC-AAATGTAATTGTATTGATGCCAAA
83289757 TACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAAC
65 TACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAAC
83289822 TTGCATCTGAATAAGGGAATGTC
130 TTGCATCTGAATAAGGGAATGTC
83289845 A
1 A
83289846 TGAACAGTCC
Statistics
Matches: 149, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
151 3 0.02
152 146 0.98
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (152 bp):
AAGTACCACCAAACACTTAATCAATGCAGGGTATAATTTCAAATGTAATTGTATTGATGCCAAAT
ACGTCTCAATCCTCACAATGCTAATTGCACAAACCAGTCTCTGTTTCCCTTTCTGAGCTGAAACT
TGCATCTGAATAAGGGAATGTC
Found at i:83291526 original size:20 final size:20
Alignment explanation
Indices: 83291501--83291546 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
83291491 CATATCATAA
83291501 ATCATACCATA-TCGATTCAT
1 ATCATACCATATTCGA-TCAT
* *
83291521 ATCATATCATATTTGATCAT
1 ATCATACCATATTCGATCAT
83291541 ATCATA
1 ATCATA
83291547 TAAAATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (20 bp):
ATCATACCATATTCGATCAT
Found at i:83292267 original size:32 final size:32
Alignment explanation
Indices: 83292231--83292291 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
83292221 CTATACAGGT
*
83292231 TGCATGATTTCACACGGTCTACCCACACGGTC
1 TGCATGATTTCACACGGACTACCCACACGGTC
*
83292263 TGCATGGTTTCACACGGACTACCCACACG
1 TGCATGATTTCACACGGACTACCCACACG
83292292 ACCTACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (32 bp):
TGCATGATTTCACACGGACTACCCACACGGTC
Found at i:83295443 original size:24 final size:24
Alignment explanation
Indices: 83295416--83295462 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
83295406 TGTAAAAGTT
83295416 TGATGAATCTAAGGTTGTATTTTA
1 TGATGAATCTAAGGTTGTATTTTA
83295440 TGATGAATCTAAGGTTGTATTTT
1 TGATGAATCTAAGGTTGTATTTT
83295463 CTACTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (24 bp):
TGATGAATCTAAGGTTGTATTTTA
Found at i:83298946 original size:46 final size:46
Alignment explanation
Indices: 83298823--83298949 Score: 159
Period size: 44 Copynumber: 2.8 Consensus size: 46
83298813 CAATATCCTA
* * * ** * *
83298823 CCAATGCCATATTTTTGACATGGACTTACATGAATTATTCCTGTCT
1 CCAATGCCATATTTATAATATGGACTTACATGGCTCAATCCTGTCT
83298869 CCAATGCCATA--TATAATATGGACTTACATGGCTCAATCCTGTCT
1 CCAATGCCATATTTATAATATGGACTTACATGGCTCAATCCTGTCT
* *
83298913 CCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 CCAATGCCATATTTATAATATGGACTTACATGGCTCA
83298950 TTTCTGTTCT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 36 0.51
46 34 0.49
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (46 bp):
CCAATGCCATATTTATAATATGGACTTACATGGCTCAATCCTGTCT
Found at i:83303586 original size:19 final size:20
Alignment explanation
Indices: 83303548--83303607 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
83303538 ATTAACTAAT
83303548 TGAAGATTAATGTATAATTAA
1 TGAAGATTAA-GTATAATTAA
83303569 TGAAGATTAAGT-TAATTAA
1 TGAAGATTAAGTATAATTAA
* * *
83303588 TTAAGTTTAATTATAATTAA
1 TGAAGATTAAGTATAATTAA
83303608 ACCTAGTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.46
20 9 0.26
21 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (20 bp):
TGAAGATTAAGTATAATTAA
Found at i:83304983 original size:18 final size:18
Alignment explanation
Indices: 83304962--83305001 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
83304952 GAAATATTTA
*
83304962 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
83304980 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
83304998 TTTT
1 TTTT
83305002 TAAATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:83305297 original size:43 final size:42
Alignment explanation
Indices: 83305215--83305299 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 42
83305205 TTTTATCCTA
* * * * *
83305215 AAAAAAGAATTTAAAAGAGGAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTAAAAAGAAGAGAAGATAAACATGAGTTGTTG
83305257 AAAAAAGAAATTAAAAAGAAGAGAAGATAAACATGAGTTGTTG
1 AAAAAAG-AATTAAAAAGAAGAGAAGATAAACATGAGTTGTTG
83305300 GGTTTACCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 7 0.19
43 30 0.81
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.22
Consensus pattern (42 bp):
AAAAAAGAATTAAAAAGAAGAGAAGATAAACATGAGTTGTTG
Found at i:83307086 original size:2 final size:2
Alignment explanation
Indices: 83307079--83307110 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
83307069 TTGATTTGTA
83307079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83307111 GAGTTGTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83307739 original size:30 final size:31
Alignment explanation
Indices: 83307699--83307759 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
83307689 GATGGTGAAA
* *
83307699 TTTTATTTTAG-CTCTTTAAAAATTAAAAAT
1 TTTTAGTTTAGTCTCTTTAAAAATAAAAAAT
* *
83307729 TTTTAGTTTAGTCTTTTTATAAATAAAAAAT
1 TTTTAGTTTAGTCTCTTTAAAAATAAAAAAT
83307760 ATTATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTTAGTTTAGTCTCTTTAAAAATAAAAAAT
Found at i:83311363 original size:3 final size:3
Alignment explanation
Indices: 83311355--83311391 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
83311345 GTTTAAACCA
83311355 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
83311392 GCGTGTAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:83312901 original size:2 final size:2
Alignment explanation
Indices: 83312894--83312952 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
83312884 AACTCATGCT
83312894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
83312936 TA TA -A AA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA
83312953 AACTATTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:83318263 original size:24 final size:24
Alignment explanation
Indices: 83318218--83318264 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
83318208 TAATTTTACT
*
83318218 TTTAATCCATACTAATTTGTTTCC
1 TTTAATCCATACTAATTCGTTTCC
* *
83318242 TTTAATCCATCCTACTTCGTTTC
1 TTTAATCCATACTAATTCGTTTC
83318265 ATTCTTACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.04, T:0.49
Consensus pattern (24 bp):
TTTAATCCATACTAATTCGTTTCC
Found at i:83318315 original size:2 final size:2
Alignment explanation
Indices: 83318308--83318334 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
83318298 GCCACATTAG
83318308 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 T
83318335 TAGTTAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:83324079 original size:15 final size:15
Alignment explanation
Indices: 83324059--83324100 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
83324049 AACTATATAC
83324059 ATAATATATAAAAAT
1 ATAATATATAAAAAT
83324074 ATAATAT-T-AAAAT
1 ATAATATATAAAAAT
*
83324087 ATATATACATAAAA
1 ATA-ATATATAAAA
83324101 GGGTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.35
14 4 0.17
15 8 0.35
16 3 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATATAAAAAT
Found at i:83325665 original size:21 final size:24
Alignment explanation
Indices: 83325623--83325668 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
83325613 TACATATGAT
*
83325623 TTCTTACTATTCTCTGCTTGTTTC
1 TTCTTACTATTCTCTGCGTGTTTC
83325647 TTCTT-CTATT-T-TGCGTGTTTC
1 TTCTTACTATTCTCTGCGTGTTTC
83325668 T
1 T
83325669 CTGCTCTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 1 0.05
23 5 0.24
24 5 0.24
ACGTcount: A:0.07, C:0.22, G:0.11, T:0.61
Consensus pattern (24 bp):
TTCTTACTATTCTCTGCGTGTTTC
Found at i:83325976 original size:21 final size:21
Alignment explanation
Indices: 83325932--83325976 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
83325922 TTGATATGGG
* * **
83325932 TTGTAGTTTGGGTTTTAATTT
1 TTGTAATTTGGATTTTAAAAT
83325953 TTGTAATTTGGATTTTAAAAT
1 TTGTAATTTGGATTTTAAAAT
83325974 TTG
1 TTG
83325977 GACATTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (21 bp):
TTGTAATTTGGATTTTAAAAT
Found at i:83335467 original size:17 final size:17
Alignment explanation
Indices: 83335445--83335478 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
83335435 GGCTTAAGAT
*
83335445 AGTTCTTAAATTCATTC
1 AGTTCTTAAAGTCATTC
83335462 AGTTCTTAAAGTCATTC
1 AGTTCTTAAAGTCATTC
83335479 CAAGCAGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (17 bp):
AGTTCTTAAAGTCATTC
Found at i:83337794 original size:7 final size:7
Alignment explanation
Indices: 83337782--83337812 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
83337772 CGTCAGTGGG
83337782 TGGCAAA
1 TGGCAAA
83337789 TGGCAAA
1 TGGCAAA
83337796 TGGCAAA
1 TGGCAAA
83337803 TGGCAAA
1 TGGCAAA
83337810 TGG
1 TGG
83337813 TATGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (7 bp):
TGGCAAA
Found at i:83338823 original size:16 final size:17
Alignment explanation
Indices: 83338798--83338870 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 17
83338788 ATGTATTTGC
*
83338798 AAAATCTTT-AATATAT
1 AAAATATTTAAATATAT
83338814 AAAATATTTAAATATAT
1 AAAATATTTAAATATAT
* * *
83338831 CAAATGAATTAGAT-TA-
1 AAAAT-ATTTAAATATAT
83338847 AATAAT-TTTAAATATA-
1 AA-AATATTTAAATATAT
83338863 AAAATATT
1 AAAATATT
83338871 ATTTGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
15 8 0.18
16 15 0.33
17 16 0.36
18 6 0.13
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAATATTTAAATATAT
Found at i:83339285 original size:29 final size:29
Alignment explanation
Indices: 83339252--83339319 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
83339242 TGCATCGACC
* **
83339252 GGTGCAATTGAAATTTGTTGCAATGAATA
1 GGTGCAATTGAAATTGGTCACAATGAATA
**
83339281 GGTGCAATCAAAATTGGTCACAATGAATA
1 GGTGCAATTGAAATTGGTCACAATGAATA
83339310 GGTGCAATTG
1 GGTGCAATTG
83339320 GTACGAACAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (29 bp):
GGTGCAATTGAAATTGGTCACAATGAATA
Found at i:83345838 original size:17 final size:17
Alignment explanation
Indices: 83345816--83345850 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
83345806 ATCTTTCTTC
83345816 TTAACAAACAGAACTGG
1 TTAACAAACAGAACTGG
83345833 TTAACAAACAGAACTGG
1 TTAACAAACAGAACTGG
83345850 T
1 T
83345851 GCTCCCCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (17 bp):
TTAACAAACAGAACTGG
Found at i:83355453 original size:27 final size:27
Alignment explanation
Indices: 83355420--83355894 Score: 600
Period size: 27 Copynumber: 17.6 Consensus size: 27
83355410 AAAGTACTCC
83355420 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
83355447 -TAGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
83355474 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
83355501 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
83355528 C-AGTTTACAGAATTACTATTTTACTCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
83355555 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
83355582 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
83355609 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
83355636 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
83355663 CGATTTATAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
83355690 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
83355717 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
83355744 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
83355770 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
83355798 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
83355825 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
83355852 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
83355879 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
83355895 TAAAATACCC
Statistics
Matches: 395, Mismatches: 43, Indels: 20
0.86 0.09 0.04
Matches are distributed among these distances:
26 5 0.01
27 385 0.97
28 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:83355918 original size:27 final size:27
Alignment explanation
Indices: 83355887--83355958 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
83355877 CTCGATTTAC
* **
83355887 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* **
83355914 GAAATTACCGCAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
*
83355941 AAAACTACCAAAATACCC
1 AAAATTACCAAAATACCC
83355959 CTGTATGGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAATTTGT
Found at i:83357163 original size:25 final size:25
Alignment explanation
Indices: 83357135--83357182 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83357125 TTATACCATG
* * *
83357135 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
83357160 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
83357183 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:83357251 original size:20 final size:20
Alignment explanation
Indices: 83357226--83357284 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
83357216 TAAATATGGT
83357226 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
83357246 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
83357266 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
83357285 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:83357266 original size:11 final size:11
Alignment explanation
Indices: 83357230--83357284 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
83357220 TATGGTATGT
83357230 ATGATATGCAC
1 ATGATATGCAC
* *
83357241 ATGAAATG--T
1 ATGATATGCAC
83357250 ATGATATGCAC
1 ATGATATGCAC
*
83357261 ATGATATG--T
1 ATGATATGCAC
83357270 ATGATATGCAC
1 ATGATATGCAC
83357281 ATGA
1 ATGA
83357285 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:83357359 original size:24 final size:24
Alignment explanation
Indices: 83357332--83357477 Score: 215
Period size: 24 Copynumber: 6.1 Consensus size: 24
83357322 ATGGAGGAAG
83357332 ATCAAAAGGGCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
83357356 ATCAAAAGGGCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
83357380 ATCAAAAGGGCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
83357404 AT-AAAAGGGCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
** *
83357427 ATTGAAAGGGCTTTTGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTT
* *
83357451 ATTAAAAGAGGC-TAGGCCTCCAGTT
1 ATCAAAAG-GGCTTATGCC-CCAGTT
83357476 AT
1 AT
83357478 ATGATAAAGC
Statistics
Matches: 114, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.20
24 80 0.70
25 11 0.10
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
ATCAAAAGGGCTTATGCCCCAGTT
Found at i:83357428 original size:47 final size:47
Alignment explanation
Indices: 83357332--83357477 Score: 213
Period size: 47 Copynumber: 3.0 Consensus size: 47
83357322 ATGGAGGAAG
83357332 ATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTT
83357380 ATCAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTT
** * *
83357427 ATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTT
1 ATCAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTT
83357476 AT
1 AT
83357478 ATGATAAAGC
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.47
48 37 0.41
49 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
ATCAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTT
Found at i:83357451 original size:71 final size:72
Alignment explanation
Indices: 83357335--83357478 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
83357325 GAGGAAGATC
*
83357335 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
83357398 CCAGTTAT
65 CCAGTTAT
** * *
83357406 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
83357471 CAGTTAT
66 CAGTTAT
83357478 A
1 A
83357479 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:83360197 original size:4 final size:4
Alignment explanation
Indices: 83360188--83360226 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
83360178 TTTGAGCGTC
83360188 AATT AATT AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
83360227 CAAAAACTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:83362811 original size:62 final size:59
Alignment explanation
Indices: 83362722--83362839 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 59
83362712 AGATTTAATA
* *
83362722 TTAAATTAGATTTAATTTAGTATTTATCTTTTAGGTAAATATT-CTATGAATTTAATAAAAT
1 TTAAATTAAATTTAATCTAGTATTTATC-TTTA--TAAATATTACTATGAATTTAATAAAAT
* *
83362783 TTAATATTAAATTTAATCTATTATTTATCTTTATAAATATTACTATTAATTTAATAA
1 TTAA-ATTAAATTTAATCTAGTATTTATCTTTATAAATATTACTATGAATTTAATAA
83362840 TAAAGTGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 8 0.16
60 14 0.27
61 8 0.16
62 21 0.41
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (59 bp):
TTAAATTAAATTTAATCTAGTATTTATCTTTATAAATATTACTATGAATTTAATAAAAT
Found at i:83365631 original size:39 final size:39
Alignment explanation
Indices: 83365537--83365653 Score: 135
Period size: 39 Copynumber: 3.0 Consensus size: 39
83365527 CACACCAGAT
* * * * * *
83365537 AGAAGCTCATAAGAGATGATCCAACCAAAATACACCAAAA
1 AGAAGCTCATAAGAGCTGATCCACCCGAAACACGCC-AAC
* *
83365577 AGAAGCTCATAAGAGCTGGTCCACCTGAAACACGCCAAC
1 AGAAGCTCATAAGAGCTGATCCACCCGAAACACGCCAAC
* *
83365616 AGAAGGTCATAAGAGCTGATCCACCCGAATCACGCCAA
1 AGAAGCTCATAAGAGCTGATCCACCCGAAACACGCCAA
83365654 ACATAAAGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 36 0.55
40 29 0.45
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (39 bp):
AGAAGCTCATAAGAGCTGATCCACCCGAAACACGCCAAC
Found at i:83366319 original size:13 final size:14
Alignment explanation
Indices: 83366287--83366318 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
83366277 AAAATCCATC
83366287 AAAAATCACTTAAT
1 AAAAATCACTTAAT
*
83366301 AAAAATCACTTAAG
1 AAAAATCACTTAAT
83366315 AAAA
1 AAAA
83366319 TTCATCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (14 bp):
AAAAATCACTTAAT
Found at i:83367114 original size:12 final size:12
Alignment explanation
Indices: 83367097--83367121 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83367087 GAGCTGTTAC
83367097 ATTTCCTTTTAG
1 ATTTCCTTTTAG
83367109 ATTTCCTTTTAG
1 ATTTCCTTTTAG
83367121 A
1 A
83367122 CTAAGGATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTTCCTTTTAG
Found at i:83378672 original size:41 final size:41
Alignment explanation
Indices: 83378615--83378803 Score: 240
Period size: 41 Copynumber: 4.7 Consensus size: 41
83378605 TTGGGGTTTA
*
83378615 AATCTGAGCTTGGTCTCGAGGGGCTTTTGAGCCAGTGTCAT
1 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
83378656 AATCTGAACTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
83378697 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
83378738 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
83378778 AATCCGAGCTT--TCTCGAAGGGCTTTT
1 AATCTGAGCTTGGTCTCGAAGGGCTTTT
83378804 TGAGTCAGCG
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 12 0.09
40 32 0.25
41 86 0.66
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (41 bp):
AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:83378838 original size:81 final size:80
Alignment explanation
Indices: 83378615--83378841 Score: 206
Period size: 81 Copynumber: 2.8 Consensus size: 80
83378605 TTGGGGTTTA
* * * * * *
83378615 AATCTGAGCTTGGTCTCGAGGGGCTTTTGAGCCAGTGTCATAATCTGAACTTGG-TCTCGAAGGG
1 AATCCGAGCTT-GTCTCGAAGGGCTTTTGAGCCAGCGTAAGAA-CCGAACTTGGTTC-CGAAGGG
* * *
83378679 CTTTTGAGCCAGTGTCAT
63 CCTTCGAGCCAATGTCAT
* * * * * *
83378697 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGTTTCGAAGGGCC
1 AATCCGAGCTT-GTCTCGAAGGGCTTTTGAGCCAGCGTAAGAACCGAACTTGGTTCCGAAGGGCC
*
83378762 TTCGGGCCAATGTCAT
65 TTCGAGCCAATGTCAT
* * **
83378778 AATCCGAGCTT-TCTCGAAGGGCTTTTTGAGTCAGCGCTAAGAATCGGGCTTGGTTCCGAAGGGC
1 AATCCGAGCTTGTCTCGAAGGGC-TTTTGAGCCAGCG-TAAGAACCGAACTTGGTTCCGAAGGGC
83378842 GTCTGTGACG
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 11 0.09
80 11 0.09
81 58 0.48
82 42 0.34
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (80 bp):
AATCCGAGCTTGTCTCGAAGGGCTTTTGAGCCAGCGTAAGAACCGAACTTGGTTCCGAAGGGCCT
TCGAGCCAATGTCAT
Found at i:83383294 original size:25 final size:23
Alignment explanation
Indices: 83383265--83383329 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
83383255 AAATAAAAAC
*
83383265 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
83383290 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
83383311 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
83383330 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:83383328 original size:19 final size:20
Alignment explanation
Indices: 83383291--83383329 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
83383281 TCAAATACAT
83383291 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
83383311 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
83383330 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:83390809 original size:55 final size:55
Alignment explanation
Indices: 83390744--83390855 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 55
83390734 ATTGTATGGC
*
83390744 AGCCTTGTATTTGAAATTTGAA-ATTCAAACACAAACTACTTGATCTTATCCTTGA
1 AGCCTTGTATTTGAAATTTGAATA-CCAAACACAAACTACTTGATCTTATCCTTGA
* *
83390799 AGCCTTGTATTTGAAATTTGAATACCATACACAAACTAGTTGATCTTATCCTTGA
1 AGCCTTGTATTTGAAATTTGAATACCAAACACAAACTACTTGATCTTATCCTTGA
83390854 AG
1 AG
83390856 TTGACGCCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
55 52 0.98
56 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (55 bp):
AGCCTTGTATTTGAAATTTGAATACCAAACACAAACTACTTGATCTTATCCTTGA
Found at i:83393219 original size:42 final size:42
Alignment explanation
Indices: 83393082--83393219 Score: 105
Period size: 42 Copynumber: 3.1 Consensus size: 42
83393072 TAGTAAGATG
* * *
83393082 CCAATGCCATATCCCAGATATGGTCTTACTTGGGATCACAACTTGATG
1 CCAATGCCATATCCCAGATATGGTCTTACAT--GATAAC-AC---ATA
* * * * * ** * *
83393130 CCAATACTATGTCCCAGACATGGTCTTAGATGGGACCTCATA
1 CCAATGCCATATCCCAGATATGGTCTTACATGATAACACATA
*
83393172 TCAATGCCATATCCCAGATATGGTCTTACATGATAACACATA
1 CCAATGCCATATCCCAGATATGGTCTTACATGATAACACATA
83393214 CCAATG
1 CCAATG
83393220 GCGATGCCAT
Statistics
Matches: 67, Mismatches: 23, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
42 39 0.58
45 1 0.01
46 2 0.03
48 25 0.37
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
CCAATGCCATATCCCAGATATGGTCTTACATGATAACACATA
Found at i:83396316 original size:30 final size:31
Alignment explanation
Indices: 83396292--83396350 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
83396282 GTAAATACTC
83396292 AAAATTT-AAGGGACTAA-AGTGTAAATATGA
1 AAAATTTGAAGGG-CTAATAGTGTAAATATGA
*
83396322 AAAATTTGAAGGGCTAATAGTGAAAATAT
1 AAAATTTGAAGGGCTAATAGTGTAAATAT
83396351 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAATTTGAAGGGCTAATAGTGTAAATATGA
Found at i:83396357 original size:24 final size:22
Alignment explanation
Indices: 83396315--83396358 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
83396305 CTAAAGTGTA
83396315 AATATGAAAAATTTGAAGGGCT
1 AATATGAAAAATTTGAAGGGCT
*
83396337 AATAGTGAAAATATTTTAAGGG
1 AATA-TGAAAA-ATTTGAAGGG
83396359 TGGAAGGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (22 bp):
AATATGAAAAATTTGAAGGGCT
Found at i:83404251 original size:43 final size:43
Alignment explanation
Indices: 83404190--83404355 Score: 271
Period size: 43 Copynumber: 3.9 Consensus size: 43
83404180 GTTGTCGAGA
* *
83404190 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
83404233 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
83404276 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
83404319 TATGATT-CGTGTAAGACCCTGTCTAGGACAGTGGCAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCAT
83404356 CAATATGTGA
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
42 27 0.23
43 90 0.77
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:83404376 original size:85 final size:86
Alignment explanation
Indices: 83404190--83404401 Score: 270
Period size: 85 Copynumber: 2.5 Consensus size: 86
83404180 GTTGTCGAGA
* * *
83404190 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATG
1 TGTGATAACGTGTAAGACCATGTTTGGGACATTGGCATTGTATTATGATTACGTGTAAGACCATG
* * **
83404255 TCTGGGACATTGGCATTGTAT
66 TCTAGGACAGTGGCATAATAT
* * *
83404276 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATTATGATT-CGTGTAAGACCCTG
1 TGTGATAACGTGTAAGACCATGTTTGGGACATTGGCATTGTATTATGATTACGTGTAAGACCATG
83404340 TCTAGGACAGTGGCATCAATA-
66 TCTAGGACAGTGGCAT-AATAT
* *
83404361 TGTGATAAC-TCGTAAGACCATATTTGGGATA-TGGCATTGTA
1 TGTGATAACGT-GTAAGACCATGTTTGGGACATTGGCATTGTA
83404402 CTAGCTTATT
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
84 11 0.10
85 52 0.46
86 49 0.44
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (86 bp):
TGTGATAACGTGTAAGACCATGTTTGGGACATTGGCATTGTATTATGATTACGTGTAAGACCATG
TCTAGGACAGTGGCATAATAT
Found at i:83415709 original size:49 final size:49
Alignment explanation
Indices: 83415631--83415755 Score: 164
Period size: 49 Copynumber: 2.5 Consensus size: 49
83415621 AGATGCCGAC
83415631 GCCATGTCCCAGACATGGTCTTACACTGGCT-TCCATATAGCGAG-GTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCT-CATATAGCG-GTGTCGAT
* * *
83415681 GCCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGTGTCGAT
* *
83415730 GCCATGTCCCAAACAGGTGTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
83415756 AACACACAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.01
49 51 0.76
50 15 0.22
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGTGTCGAT
Found at i:83415885 original size:46 final size:46
Alignment explanation
Indices: 83415820--83415989 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 46
83415810 TCGCAAGGCA
* *
83415820 GATGCATGTCCCAGGCATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
* * ** * *
83415866 GATGCATGTCTCAGACATGTCTTACACTGGAT-TAAATATCTCGAGGCC
1 GATGCATGTCTCAGACATGTCTTACACTAGCTCT---CGTCTCAATGCC
* * * * **
83415914 GATGCATGTCTCAGACATTTCTTACGCTGGCTCTCGTAT-TGTGGCC
1 GATGCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GCC
83415960 GATGCATGT-TCTAGACATGTCTTACACTAG
1 GATGCATGTCTC-AGACATGTCTTACACTAG
83415990 TACACATATC
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
45 3 0.03
46 57 0.58
48 37 0.38
49 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (46 bp):
GATGCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
Found at i:83415892 original size:94 final size:94
Alignment explanation
Indices: 83415776--83415989 Score: 243
Period size: 94 Copynumber: 2.3 Consensus size: 94
83415766 AAGCTGACGC
* * * ** *
83415776 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCAAGGCAGATGCATGTCCCAGGCATGTC
1 CATGTCTCAGACATGTCTTACACTAGATTAAATATCGCAAGGCAGATGCATGTCCCAGACATGTC
*
83415841 TTACACTAGCTCTCGTCTCAAT-GCCGATG
66 TTACACTAGCTCTCGTAT-AATGGCCGATG
* * * * * *
83415870 CATGTCTCAGACATGTCTTACACTGGATTAAATATCTCGAGGCCGATGCATGTCTCAGACATTTC
1 CATGTCTCAGACATGTCTTACACTAGATTAAATATCGCAAGGCAGATGCATGTCCCAGACATGTC
* * **
83415935 TTACGCTGGCTCTCGTATTGTGGCCGATG
66 TTACACTAGCTCTCGTATAATGGCCGATG
83415964 CATGT-TCTAGACATGTCTTACACTAG
1 CATGTCTC-AGACATGTCTTACACTAG
83415990 TACACATATC
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
93 3 0.03
94 97 0.97
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (94 bp):
CATGTCTCAGACATGTCTTACACTAGATTAAATATCGCAAGGCAGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGTATAATGGCCGATG
Found at i:83415923 original size:48 final size:46
Alignment explanation
Indices: 83415863--83415987 Score: 146
Period size: 48 Copynumber: 2.7 Consensus size: 46
83415853 TCGTCTCAAT
83415863 GCCGATGCATGTCTCAGACATGTCTTACACTGGAT-TAAATATCTCGAG
1 GCCGATGCATGTCTCAGACATGTCTTACACTGGATCT-AATAT-T-GAG
* * * ** *
83415911 GCCGATGCATGTCTCAGACATTTCTTACGCTGGCTCTCGTATTGTG
1 GCCGATGCATGTCTCAGACATGTCTTACACTGGATCTAATATTGAG
83415957 GCCGATGCATGT-TCTAGACATGTCTTACACT
1 GCCGATGCATGTCTC-AGACATGTCTTACACT
83415988 AGTACACATA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
45 2 0.03
46 28 0.42
47 1 0.01
48 35 0.52
49 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (46 bp):
GCCGATGCATGTCTCAGACATGTCTTACACTGGATCTAATATTGAG
Found at i:83424892 original size:48 final size:47
Alignment explanation
Indices: 83424820--83425034 Score: 193
Period size: 46 Copynumber: 4.6 Consensus size: 47
83424810 AAGTTGACCC
* * *
83424820 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
* ** * * * * *
83424868 TATGTCTTAGACATGTCTTACACTAGCTCT-CATCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
* * * *
83424914 CATGTCCCAGACATTTCTTACATTAGCTTAAATATCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
* * *
83424962 CATGTCCCAGACATGTCTTACACTGGCTCTCATAT-T-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCCGATG
* * *
83425008 GATGTCCTAGACATGTCTTGCACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
83425035 ATACATATCA
Statistics
Matches: 134, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
46 66 0.49
47 2 0.01
48 65 0.49
49 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
Found at i:83424941 original size:94 final size:94
Alignment explanation
Indices: 83424726--83424994 Score: 258
Period size: 94 Copynumber: 2.9 Consensus size: 94
83424716 ATGCCGACGC
* ** * * *
83424726 CATGTCCCAGACATGGTCTTACACTGGCTTTTATATAGCGAGGCTGATGCCATGTCCCAGACAGG
1 CATGTCCCAGACA-GGTCTTACACTAGCTTAAATATCGCGAGGCCGATG-CATGTCCCAGACATG
* * * * **
83424791 TCTTACACT-G-ACACA-CGACAA-GTTGACCC
64 TCTTACACTAGCTCTCATC-TCAATGTCGA-TG
* ** * **
83424820 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGTATGTCTTAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTC
83424885 TTACACTAGCTCTCATCTCAATGTCGATG
66 TTACACTAGCTCTCATCTCAATGTCGATG
** * **
83424914 CATGTCCCAGACATTTCTTACATTAGCTTAAATATCTTGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTC
*
83424979 TTACACTGGCTCTCAT
66 TTACACTAGCTCTCAT
83424995 ATTGTGGCCG
Statistics
Matches: 144, Mismatches: 27, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
92 20 0.14
93 32 0.22
94 87 0.60
95 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATCTCAATGTCGATG
Found at i:83425007 original size:94 final size:94
Alignment explanation
Indices: 83424716--83425043 Score: 252
Period size: 94 Copynumber: 3.5 Consensus size: 94
83424706 ATGGGTTAAG
* * ** * *
83424716 ATGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTTTATATAGCGAGGCTGATGCCATGT
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTAAATATCGCGAGGCCGATG-CATGT
* * * *
83424781 CCCAGACAGGTCTTACACT-G-ACACACGA-CA
63 CCCAGACATGTCTTACACTAGCTCTCA-TATCA
** ** * * ** * *
83424811 A-GTTGACCCCATGTCTCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGTATGTCT
1 ATGCCGA-TGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCC
* *
83424875 TAGACATGTCTTACACTAGCTCTCATCTCA
65 CAGACATGTCTTACACTAGCTCTCATATCA
* * * **
83424905 ATGTCGATGCATGTCCCAGACATTTCTTACATTAGCTTAAATATCTTGAGGCCGATGCATGTCCC
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCC
* *
83424970 AGACATGTCTTACACTGGCTCTCATAT-T
66 AGACATGTCTTACACTAGCTCTCATATCA
* * * * * *
83424998 GTGGCCGATGGATGTCCTAGACATGTCTTGCACTAGCATACATATC
1 AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATC
83425044 ACCCAATGTC
Statistics
Matches: 184, Mismatches: 43, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
92 20 0.11
93 32 0.17
94 126 0.68
95 6 0.03
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (94 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCC
AGACATGTCTTACACTAGCTCTCATATCA
Found at i:83427234 original size:14 final size:14
Alignment explanation
Indices: 83427217--83427251 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
83427207 TTTAGATAAG
*
83427217 TTTTCAAGTTATGT
1 TTTTAAAGTTATGT
83427231 TTTTAAAGTTATG-
1 TTTTAAAGTTATGT
83427244 TTTTAAAG
1 TTTTAAAG
83427252 AAAAGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (14 bp):
TTTTAAAGTTATGT
Found at i:83429561 original size:40 final size:40
Alignment explanation
Indices: 83429505--83429587 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
83429495 ATCTCCATCT
*
83429505 CATTGCCTTGTATCTTAAACTATATAT-ATAACCCTATGGC
1 CATTGCCCTGTATCTTAAACTATAT-TCATAACCCTATGGC
*
83429545 CATTGCCCTGTTTCTTAAACTATATTCATAACCCTATGGC
1 CATTGCCCTGTATCTTAAACTATATTCATAACCCTATGGC
83429585 CAT
1 CAT
83429588 GTGGAAAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (40 bp):
CATTGCCCTGTATCTTAAACTATATTCATAACCCTATGGC
Found at i:83430880 original size:20 final size:20
Alignment explanation
Indices: 83430855--83430896 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
83430845 GTAACAAACA
*
83430855 AAGATATAGCAAAGAAAAGG
1 AAGATAAAGCAAAGAAAAGG
*
83430875 AAGATAAAGTAAAGAAAAGG
1 AAGATAAAGCAAAGAAAAGG
83430895 AA
1 AA
83430897 TGTAATATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.64, C:0.02, G:0.24, T:0.10
Consensus pattern (20 bp):
AAGATAAAGCAAAGAAAAGG
Found at i:83433342 original size:6 final size:5
Alignment explanation
Indices: 83433312--83433341 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
83433302 TTGTGTGTGT
83433312 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
83433342 TTTCTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:83436073 original size:39 final size:39
Alignment explanation
Indices: 83436014--83436363 Score: 540
Period size: 39 Copynumber: 9.0 Consensus size: 39
83436004 AAGACACTGA
83436014 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
83436053 AAATATATCCGGGCCAAAGTCCCGCAAGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
83436092 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
83436131 AAATGTATCCGGACTAAAG-CCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * * *
83436169 AAATATATCCGGGCCAAAGCCCCGCAGGCGTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
** *
83436208 AAATGTATCCGAACTAAAGTCCCGCGGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
83436247 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
83436286 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
83436325 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
83436364 TAATATAATT
Statistics
Matches: 285, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 35 0.12
39 250 0.88
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.22
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:83438260 original size:23 final size:23
Alignment explanation
Indices: 83438230--83438276 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
83438220 CAACTTACGA
83438230 AACAGTTAAAGTTAAGATGTTTG
1 AACAGTTAAAGTTAAGATGTTTG
83438253 AACAGTTAAAGTTAAGATGTTTG
1 AACAGTTAAAGTTAAGATGTTTG
83438276 A
1 A
83438277 TGGAGTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (23 bp):
AACAGTTAAAGTTAAGATGTTTG
Found at i:83441610 original size:5 final size:5
Alignment explanation
Indices: 83441596--83441625 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
83441586 TTGTGTGTGT
83441596 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
83441626 CTCACTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:83448437 original size:10 final size:10
Alignment explanation
Indices: 83448418--83448467 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
83448408 TTAAATTCTA
83448418 AAAGATAAAT
1 AAAGATAAAT
83448428 ACAA-ATAAAT
1 A-AAGATAAAT
*
83448438 AAAGATAATT
1 AAAGATAAAT
83448448 AAAGATAAAT
1 AAAGATAAAT
83448458 GAAA-ATAAAT
1 -AAAGATAAAT
83448468 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:83450405 original size:54 final size:53
Alignment explanation
Indices: 83450264--83450457 Score: 223
Period size: 54 Copynumber: 3.6 Consensus size: 53
83450254 ATTAGGGTTT
* *
83450264 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGATAA-G-TTCATAAGGC
* * *
83450319 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CATAAGGC
* * * *
83450373 AAAGG-TCCCATGTAAGAGCATGCCAAGGCATGGCATT-AGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGA-TAAGTTCATAAGGC
*
83450426 AAGGATACCATGTAAGACCATGTCAAGACATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
83450458 TCAATGGTAA
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 6 0.05
53 34 0.29
54 44 0.37
55 34 0.29
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:83450469 original size:107 final size:109
Alignment explanation
Indices: 83450271--83450470 Score: 298
Period size: 107 Copynumber: 1.9 Consensus size: 109
83450261 TTTAAGGATA
* *
83450271 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
83450336 CCATGTCAAGACATGGCATTGATAAGTTACATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACATAAGGCAAAGGTC
* * *
83450380 CCATGTAAGAGCATGCCAAGGCATGGC-ATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
83450442 ACCATGTCAAGACATGTCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
83450471 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
106 3 0.04
107 47 0.57
108 6 0.07
109 26 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACATAAGGCAAAGGTC
Found at i:83454815 original size:15 final size:14
Alignment explanation
Indices: 83454767--83454829 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
83454757 TTAATATCTA
83454767 AAAAT-AATAA-AT
1 AAAATAAATAAGAT
*
83454779 AAGAT-AATAAGAT
1 AAAATAAATAAGAT
83454792 AAAATAAATAAGA-
1 AAAATAAATAAGAT
*
83454805 ATAAATGAAATAAAATT
1 A-AAAT-AAATAAGA-T
83454822 AAAATAAA
1 AAAATAAA
83454830 AATTAGGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
12 9 0.21
13 7 0.17
14 11 0.26
15 10 0.24
16 4 0.10
17 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (14 bp):
AAAATAAATAAGAT
Found at i:83462553 original size:14 final size:14
Alignment explanation
Indices: 83462534--83462560 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83462524 TTGTCCTCAA
83462534 TTTCAGAAACTAAG
1 TTTCAGAAACTAAG
83462548 TTTCAGAAACTAA
1 TTTCAGAAACTAA
83462561 CTCCGGACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (14 bp):
TTTCAGAAACTAAG
Found at i:83466620 original size:20 final size:19
Alignment explanation
Indices: 83466575--83466623 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
83466565 AATTTATCTA
* *
83466575 TATTAATAGTTTTATGTAT
1 TATTAACAGTTTTATATAT
*
83466594 TAGTTAACAGTTTTGATATTT
1 TA-TTAACAGTTTT-ATATAT
83466615 TATTAACAG
1 TATTAACAG
83466624 ATATTTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 17 0.68
21 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (19 bp):
TATTAACAGTTTTATATAT
Found at i:83473196 original size:18 final size:17
Alignment explanation
Indices: 83473162--83473196 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
83473152 TTCTTTTATG
*
83473162 ATTTTTTTAACTTTTTA
1 ATTTTTTTAACTATTTA
83473179 ATTTTTTTAATCTATTTA
1 ATTTTTTTAA-CTATTTA
83473197 TTATATGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTTAACTATTTA
Found at i:83474942 original size:26 final size:26
Alignment explanation
Indices: 83474897--83475070 Score: 208
Period size: 26 Copynumber: 6.8 Consensus size: 26
83474887 TTTCAGCTTC
* *
83474897 AAATTATTTTATGTATTATTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
* *
83474923 AAACTGTTTTATATACTATTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
** *
83474949 AAATCATTTTATATACTATTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
* * *
83474975 AAATTGTCTTATATGTTATTTATTTC
1 AAATTGTTTTATATATTATTTATTTT
83475001 AAATTGTTTTATATATTATTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
83475027 AAATTGTTTTATATA-T-TTTATTTT
1 AAATTGTTTTATATATTATTTATTTT
** * *
83475051 ATTTTATTTTAAATATTATT
1 AAATTGTTTTATATATTATT
83475071 CAATTGGTAA
Statistics
Matches: 126, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
24 19 0.15
25 2 0.02
26 105 0.83
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (26 bp):
AAATTGTTTTATATATTATTTATTTT
Found at i:83484530 original size:26 final size:27
Alignment explanation
Indices: 83484501--83484553 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
83484491 TAATTTTTCA
83484501 TATT-TTATAAATACTTTAATTA-CTTT
1 TATTATTA-AAATACTTTAATTATCTTT
*
83484527 TATTATTAAAATATTTTAATTATCTTT
1 TATTATTAAAATACTTTAATTATCTTT
83484554 AAAATAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTATTAAAATACTTTAATTATCTTT
Found at i:83488937 original size:13 final size:13
Alignment explanation
Indices: 83488919--83488947 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
83488909 TATTTTAATA
83488919 TTATTTTAAGTGT
1 TTATTTTAAGTGT
83488932 TTATTTTAAGTGT
1 TTATTTTAAGTGT
83488945 TTA
1 TTA
83488948 CAACATGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (13 bp):
TTATTTTAAGTGT
Found at i:83490166 original size:40 final size:40
Alignment explanation
Indices: 83489990--83490167 Score: 189
Period size: 40 Copynumber: 4.4 Consensus size: 40
83489980 CAGCTATAAG
* * * *
83489990 TGGCACTTAGTGTGTGATTCAACATAGTTTCGACTATATG
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATATA
*
83490030 TGGCACTTAGTGTGCAATTCGACATAGCTTC-AGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGA-CTATATA
* * * *
83490070 TGGAACTTAGTGTG-GAAGATCGAGATAGCTTAGACTATATA
1 TGGCACTTAGTGTGCG-A-TTCGACATAGCTTCGACTATATA
* * * * *
83490111 TGGCACTTAGTGTGCGATTTGAGATAGATTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATATA
83490151 TGGCACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
83490168 GATATCGAGT
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.70
41 32 0.28
42 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATATA
Found at i:83493507 original size:16 final size:17
Alignment explanation
Indices: 83493479--83493522 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
83493469 ACAAATGAGC
83493479 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
83493499 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
83493516 AGGGAAA
1 AGGGAAA
83493523 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:83494368 original size:6 final size:6
Alignment explanation
Indices: 83494357--83494388 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
83494347 TCTGTACCTG
*
83494357 ACTGTT ACTGTT ACTATT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
83494389 CCTTACGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:83494394 original size:18 final size:18
Alignment explanation
Indices: 83494357--83494394 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
83494347 TCTGTACCTG
*
83494357 ACTGTTACTGTTACTATT
1 ACTGTTACTGTTACCATT
*
83494375 ACTGTTACTGTTACCCTT
1 ACTGTTACTGTTACCATT
83494393 AC
1 AC
83494395 GGTGTATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (18 bp):
ACTGTTACTGTTACCATT
Found at i:83497090 original size:20 final size:20
Alignment explanation
Indices: 83497065--83497132 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
83497055 CTTGTACTTG
*
83497065 TTTGCACTTTGGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTA
* *
83497085 TTTGCA-TTCCAGTGCCTCTT
1 TTTGCACTT-CGGTGCCTCTA
* *
83497105 TTTACACTTCGGTGTCTCTA
1 TTTGCACTTCGGTGCCTCTA
83497125 TTTGCACT
1 TTTGCACT
83497133 CTGGTACGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.12, C:0.26, G:0.16, T:0.46
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTA
Found at i:83499125 original size:16 final size:16
Alignment explanation
Indices: 83499104--83499135 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
83499094 CCATCCATTA
83499104 ACAAGAATCATAATAC
1 ACAAGAATCATAATAC
83499120 ACAAGAATCATAATAC
1 ACAAGAATCATAATAC
83499136 TTGCCGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (16 bp):
ACAAGAATCATAATAC
Found at i:83502752 original size:24 final size:24
Alignment explanation
Indices: 83502720--83502854 Score: 234
Period size: 24 Copynumber: 5.6 Consensus size: 24
83502710 TATCTCAAAT
83502720 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
83502744 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
83502768 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
83502792 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
83502816 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
83502840 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
83502855 ACATAATAAG
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 108 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:83502772 original size:48 final size:48
Alignment explanation
Indices: 83502720--83502876 Score: 235
Period size: 48 Copynumber: 3.3 Consensus size: 48
83502710 TATCTCAAAT
*
83502720 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
83502768 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
* * * ** *
83502816 GCACTATGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
83502864 GCACTATGTGTGC
1 GCACTATGTGTGC
83502877 CACATTCGGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 96 0.95
49 5 0.05
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
Found at i:83502868 original size:72 final size:72
Alignment explanation
Indices: 83502720--83502876 Score: 226
Period size: 72 Copynumber: 2.2 Consensus size: 72
83502710 TATCTCAAAT
* * **
83502720 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACA
* *
83502785 TACTATG
66 TAATATA
* *
83502792 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTGCTATAGCTCTATGTGTGCGAAC
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCG-AC
83502857 ATAATA-A
65 ATAATATA
83502864 GCACTATGTGTGC
1 GCACTATGTGTGC
83502877 CACATTCGGT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
72 71 0.93
73 5 0.07
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACA
TAATATA
Found at i:83504410 original size:47 final size:48
Alignment explanation
Indices: 83504341--83504610 Score: 170
Period size: 47 Copynumber: 5.8 Consensus size: 48
83504331 GGTAAGGTGC
83504341 CGATGACATGTCCTAGACATGGTCTTACACTGGCCCAT-ATCTCAAT-T
1 CGATG-CATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCAATAT
* * * * * *
83504388 CGATGCCATGTCCCAGACATGGTCTTACGCT-GACTATCATCTC-GTAG
1 CGATG-CATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCAATAT
** * ***
83504435 CTGATGCATGTCCTAGACAT-GTCTTACACTGGCTTA-CATCTCGAGGC
1 C-GATGCATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCAATAT
* * * * ** *
83504482 CGATGCATGTCCTAGACAT-TTCTTACACTAGCAC-TCGTCTTGATGT
1 CGATGCATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCAATAT
* * *
83504528 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCA--T-AATGT
1 CGATG-CATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCAATAT
* *
83504573 GGCTGATGCATGTCCCAGACAT-GTCTTACACTAGCCCA
1 --C-GATGCATGTCCTAGACATGGTCTTACACTGGCCCA
83504611 CAATGACCCA
Statistics
Matches: 180, Mismatches: 31, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
45 4 0.02
46 75 0.42
47 79 0.44
48 22 0.12
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
CGATGCATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCAATAT
Found at i:83504586 original size:94 final size:92
Alignment explanation
Indices: 83504437--83504607 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
83504427 TCTCGTAGCT
* * * *
83504437 GATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCTAGACATT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACATG
83504502 TCTTACACTAGCACTCGTCTTGATGTC
66 TCTTACACTAGCACTCGTCTTGATGTC
* *
83504529 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCTGATGCATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATGTCCCAGA
83504592 CATGTCTTACACTAGC
62 CATGTCTTACACTAGC
83504608 CCACAATGAC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 50 0.72
95 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCACTCGTCTTGATGTC
Found at i:83504599 original size:140 final size:141
Alignment explanation
Indices: 83504339--83504604 Score: 369
Period size: 140 Copynumber: 1.9 Consensus size: 141
83504329 GGGGTAAGGT
* *
83504339 GCCGATGACATGTCCTAGACATGGTCTTACACTGGCCCATATCTCAATTCGATGCCATGTCCCAG
1 GCCGATGACATGTCCTAGACATGGTCTTACACTAGCACATATCTCAATTCGATGCCATGTCCCAG
* * *
83504404 ACATGGTCTTACGCTGACTATCATCTCGTAGCTGATGCATGTCCTAGACATGTCTTACACTGGCT
66 ACATGGTCTTACACTGACTATCATATCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT
83504469 TACATCTCGAG
131 TACATCTCGAG
* * **
83504480 GCCGATG-CATGTCCTAGACAT-TTCTTACACTAGCAC-TCGTCTTGATGTCGATGCCATGTCCC
1 GCCGATGACATGTCCTAGACATGGTCTTACACTAGCACAT-ATCTCAAT-TCGATGCCATGTCCC
* * *
83504542 AGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCATGTCCCAGACATGTCTTACACT
64 AGACATGGTCTTACACTGACTATCAT-ATCGTAGCTGATGCATGTCCCAGACATGTCTTACACT
83504605 AGCCCACAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.15
140 84 0.76
141 8 0.07
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (141 bp):
GCCGATGACATGTCCTAGACATGGTCTTACACTAGCACATATCTCAATTCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCATATCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT
TACATCTCGAG
Found at i:83515572 original size:44 final size:44
Alignment explanation
Indices: 83515498--83515809 Score: 187
Period size: 44 Copynumber: 6.8 Consensus size: 44
83515488 GTTGTCATGG
* * *
83515498 CAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCA
1 CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCA
* * * **
83515542 CAAACCTTATCTCCCTAAAGTTGTAGTGGAGCATATTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCA
* * * * * * *
83515586 GCGAATCTCATTTCCTTGAAGTTGTAGTGGAACAAATTAAAGCTACAAGACA
1 -CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAG---C----CA
* ** * *
83515638 CAAATCCTATGC-CTTTAGAGTTGTAGTGG-GTCAGATTAAATCTACCA
1 CAAATCTTAT-CTCCCTAAAGTTGTAGTGGAG-CAGATTAAA---GCCA
* * * *
83515685 TGGCAAATCTTATCTCCCTTAAGTTGCAGTAGAGCAGATTGAAGCCA
1 ---CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCA
* * * *
83515732 CTAATCTTATCTCCCTAAAGTTTTAGTGGAGCAAATTAAAACCA
1 CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCA
* * *
83515776 CAAACCTTATCTCCTTGAAGTTGTAGTGGAGCAG
1 CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAG
83515810 GTTGAAGTTA
Statistics
Matches: 198, Mismatches: 52, Indels: 36
0.69 0.18 0.13
Matches are distributed among these distances:
44 100 0.51
45 32 0.16
47 5 0.03
49 1 0.01
50 28 0.14
51 31 0.16
52 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCA
Found at i:83517312 original size:4 final size:4
Alignment explanation
Indices: 83517297--83517326 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
83517287 AATTATTTAA
83517297 TATT TCATT TATT TATT TATT TATT TATT T
1 TATT T-ATT TATT TATT TATT TATT TATT T
83517327 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:83517492 original size:3 final size:3
Alignment explanation
Indices: 83517484--83517587 Score: 163
Period size: 3 Copynumber: 34.7 Consensus size: 3
83517474 TAGATCGTTG
83517484 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
83517532 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCA TCA TCA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
83517580 TTA TTA TT
1 TTA TTA TT
83517588 GTTTTTTATA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 97 1.00
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:83521085 original size:23 final size:23
Alignment explanation
Indices: 83521058--83521102 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
83521048 CTTGATACAT
*
83521058 GGCTCTTTGTGAGCTTCCTGATA
1 GGCTCTTCGTGAGCTTCCTGATA
* *
83521081 GGCTCTTCGTGAGTTTTCTGAT
1 GGCTCTTCGTGAGCTTCCTGAT
83521103 TAAAAGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.20, G:0.27, T:0.42
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCTGATA
Found at i:83525038 original size:20 final size:21
Alignment explanation
Indices: 83524995--83525040 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
83524985 ACTGTTCTGT
83524995 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
83525015 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
83525034 TATGGGC
1 TATGGGC
83525041 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Done.