Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 110 of 196
Found at i:33176342 original size:9 final size:9
Alignment explanation
Indices: 33176308--33176356 Score: 63
Period size: 9 Copynumber: 6.0 Consensus size: 9
33176298 TCGATTTAAA
33176308 AAATTAA-T
1 AAATTAATT
33176316 AAATT--TT
1 AAATTAATT
33176323 AAATT--TT
1 AAATTAATT
33176330 AAATTAATT
1 AAATTAATT
33176339 AAATTAATT
1 AAATTAATT
33176348 AAATTAATT
1 AAATTAATT
33176357 TTTTGAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 13 0.34
8 5 0.13
9 20 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AAATTAATT
Found at i:33176577 original size:23 final size:22
Alignment explanation
Indices: 33176540--33176606 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
33176530 ATCTTAAAAA
33176540 ATTCAAAATATTTATAAAATATT
1 ATTCAAAAT-TTTATAAAATATT
*
33176563 TTTCTAAAATTTTAT-AAATATAT
1 ATTC-AAAATTTTATAAAATAT-T
33176586 ATTCAAAA-TTT-TAAAATATT
1 ATTCAAAATTTTATAAAATATT
33176606 A
1 A
33176607 AAAATTACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 3 0.08
21 9 0.23
22 10 0.26
23 12 0.31
24 5 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTCAAAATTTTATAAAATATT
Found at i:33176581 original size:22 final size:21
Alignment explanation
Indices: 33176540--33176606 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 21
33176530 ATCTTAAAAA
33176540 ATTCAAAATATTTATAAAATATT
1 ATTCAAAAT-TTTAT-AAATATT
*
33176563 TTTCTAAAATTTTATAAATATAT
1 ATTC-AAAATTTTATAAATAT-T
33176586 ATTCAAAATTTTA-AAATATT
1 ATTCAAAATTTTATAAATATT
33176606 A
1 A
33176607 AAAATTACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.05
21 6 0.15
22 15 0.38
23 12 0.30
24 5 0.12
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTCAAAATTTTATAAATATT
Found at i:33178544 original size:74 final size:73
Alignment explanation
Indices: 33178459--33178603 Score: 170
Period size: 73 Copynumber: 2.0 Consensus size: 73
33178449 AGGGGGGTTG
*
33178459 GAGGAAATAAAAGTTTTG-GAGAAAATGTAAAAGGAAAAAAGTTTTGGAGATTTGGG-GAAAGTA
1 GAGGAAATAAAAG-ATTGAGAGAAAA-GTAAAAGGAAAAAAGTTTTGG-GATTTGGGAGAAAGTA
33178522 GAATT-TTTTAA
63 -AATTATTTTAA
* * * * * *
33178533 GAGGAAGTAAAAGATTGAGGGGAAAGTAAAAGGAAAAAGGTTTTGGGGTTTGGGAGGAAGTAAAT
1 GAGGAAATAAAAGATTGAGAGAAAAGTAAAAGGAAAAAAGTTTTGGGATTTGGGAGAAAGTAAAT
33178598 TATTTT
66 TATTTT
33178604 GGGGAAAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
72 11 0.18
73 33 0.54
74 17 0.28
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (73 bp):
GAGGAAATAAAAGATTGAGAGAAAAGTAAAAGGAAAAAAGTTTTGGGATTTGGGAGAAAGTAAAT
TATTTTAA
Found at i:33181674 original size:41 final size:41
Alignment explanation
Indices: 33181628--33181818 Score: 265
Period size: 41 Copynumber: 4.7 Consensus size: 41
33181618 TAATTATTCA
33181628 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * **
33181669 TTGAATTGCACATACATGCCATTGTTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
33181710 CTGAATTGCACATATGTGCCCCTGTTTGTACTTTGATACCC
1 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
33181751 CTAAATTGCACATACATGCCACTGTTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
33181792 TTGAATTGCACCTATGTGCCCCTGTTT
1 CTGAATTGCACATACGTGCCCCTGTTT
33181819 ACACTCCGGT
Statistics
Matches: 127, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:33181765 original size:82 final size:82
Alignment explanation
Indices: 33181628--33181818 Score: 310
Period size: 82 Copynumber: 2.3 Consensus size: 82
33181618 TAATTATTCA
* * * * *
33181628 CTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATTGCACATACATGCCATTG
1 CTGAATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTAAATTGCACATACATGCCACTG
33181693 TTTGTACTTCGGTACCC
66 TTTGTACTTCGGTACCC
*
33181710 CTGAATTGCACATATGTGCCCCTGTTTGTACTTTGATACCCCTAAATTGCACATACATGCCACTG
1 CTGAATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTAAATTGCACATACATGCCACTG
33181775 TTTGTACTTCGGTACCC
66 TTTGTACTTCGGTACCC
* *
33181792 TTGAATTGCACCTATGTGCCCCTGTTT
1 CTGAATTGCACATATGTGCCCCTGTTT
33181819 ACACTCCGGT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 101 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (82 bp):
CTGAATTGCACATATGTGCCCCTGTTTGTACTTCGATACCCCTAAATTGCACATACATGCCACTG
TTTGTACTTCGGTACCC
Found at i:33189288 original size:51 final size:50
Alignment explanation
Indices: 33189216--33189400 Score: 167
Period size: 51 Copynumber: 3.7 Consensus size: 50
33189206 GGTTCACATC
* * *
33189216 GTAGCCTGTACATAGTACTACACATGTAACCATTACCATCCGATACACGTA
1 GTAGCCTGCACATAGTACTACACACGTAACCA-TATCATCCGATACACGTA
* *** * * * *
33189267 GTAGCCTGCACATAGTACTACAGACGTGATTGAAATTATCC-AGTACGCATA
1 GTAGCCTGCACATAGTACTACACACGT-AACCATATCATCCGA-TACACGTA
* * ** *
33189318 GTAGCCTGTACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTA
1 GTAGCCTGCACATAGTACTACACACGTAACCATATCA-TCCGATACACGTA
*
33189368 GTAGCCTGCACATAGTACTACACACGTGACCAT
1 GTAGCCTGCACATAGTACTACACACGTAACCAT
33189401 CACTTTCACT
Statistics
Matches: 102, Mismatches: 27, Indels: 10
0.73 0.19 0.07
Matches are distributed among these distances:
49 3 0.03
50 38 0.37
51 59 0.58
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
GTAGCCTGCACATAGTACTACACACGTAACCATATCATCCGATACACGTA
Found at i:33199243 original size:4 final size:4
Alignment explanation
Indices: 33199236--33199262 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33199226 TGTATGTATC
33199236 AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AAT
33199263 CTAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:33201672 original size:67 final size:67
Alignment explanation
Indices: 33201599--33201734 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
33201589 AAAGAGGTGC
*
33201599 TAATCATCCTAGGAAGGCCTTTCCTAGAAACAGGAAGGACTTTAGTTGATGTGCAGAAAGACGAG
1 TAATCATCCTAGGAAGGCCTTTCCTAGAAACAGGAAGGACTTTAATTGATGTGCAGAAAGACGAG
33201664 CT
66 CT
* *
33201666 TAATCATCCTAGGAAGGCCTTTCCTGGAAACAGGATGGACTTTAATTGATGTGCAGAAAGACGAG
1 TAATCATCCTAGGAAGGCCTTTCCTAGAAACAGGAAGGACTTTAATTGATGTGCAGAAAGACGAG
33201731 CT
66 CT
33201733 TA
1 TA
33201735 CCATACGTGT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (67 bp):
TAATCATCCTAGGAAGGCCTTTCCTAGAAACAGGAAGGACTTTAATTGATGTGCAGAAAGACGAG
CT
Found at i:33203696 original size:21 final size:21
Alignment explanation
Indices: 33203659--33203698 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33203649 ATAAGATTGG
33203659 AAATACTACGAGAATGGCTAT
1 AAATACTACGAGAATGGCTAT
*
33203680 AAATAGCTAGGAG-ATGGCT
1 AAATA-CTACGAGAATGGCT
33203699 CCCAGTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (21 bp):
AAATACTACGAGAATGGCTAT
Found at i:33207873 original size:25 final size:26
Alignment explanation
Indices: 33207845--33207901 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
33207835 ACCCCTAAAC
* *
33207845 AAATTTTGACAGTTTTACCC-TGTTA
1 AAATTTTGACAATTTTACCCTTGGTA
*
33207870 AAATTTTGACAATTTTTCCCTTGGTA
1 AAATTTTGACAATTTTACCCTTGGTA
33207896 AAATTT
1 AAATTT
33207902 CAAGAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (26 bp):
AAATTTTGACAATTTTACCCTTGGTA
Found at i:33207886 original size:26 final size:25
Alignment explanation
Indices: 33207845--33207901 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
33207835 ACCCCTAAAC
*
33207845 AAATTTTGACAGTTTTACCC-TGTTA
1 AAATTTTGACAGTTTT-CCCTTGGTA
*
33207870 AAATTTTGACAATTTTTCCCTTGGTA
1 AAATTTTGAC-AGTTTTCCCTTGGTA
33207896 AAATTT
1 AAATTT
33207902 CAAGAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (25 bp):
AAATTTTGACAGTTTTCCCTTGGTA
Found at i:33217613 original size:25 final size:25
Alignment explanation
Indices: 33217585--33217639 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
33217575 ATTTCATTTA
* *
33217585 GAAAATGTTCTCGTTATT-AAAGTAG
1 GAAAATATTCTCCTT-TTGAAAGTAG
*
33217610 GAAAGTATTCTCCTTTTGAAAGTAG
1 GAAAATATTCTCCTTTTGAAAGTAG
33217635 GAAAA
1 GAAAA
33217640 AGTTATCCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (25 bp):
GAAAATATTCTCCTTTTGAAAGTAG
Found at i:33218786 original size:41 final size:41
Alignment explanation
Indices: 33218716--33218809 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
33218706 TTTTACATGG
* *
33218716 TAATCACAT-TCACTTTTAAGCATATATCACATTACAAATA
1 TAATCACATATCACTTTTAAGCATAGATCACAATACAAATA
* *
33218756 TAATCACATATCACATTTT-CGCATAGATCACAATACACATA
1 TAATCACATATCAC-TTTTAAGCATAGATCACAATACAAATA
33218797 TAATCACATATCA
1 TAATCACATATCA
33218810 TTCATATGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
40 9 0.19
41 35 0.73
42 4 0.08
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (41 bp):
TAATCACATATCACTTTTAAGCATAGATCACAATACAAATA
Found at i:33218832 original size:16 final size:17
Alignment explanation
Indices: 33218782--33218878 Score: 70
Period size: 17 Copynumber: 5.4 Consensus size: 17
33218772 TTTCGCATAG
*
33218782 ATCACAATACACATATA
1 ATCACAATACTCATATA
*
33218799 ATCACATATCATTCATAT-
1 ATCACA-AT-ACTCATATA
*
33218817 GTCACAATACTCATATA
1 ATCACAATACTCATATA
*
33218834 ATCACATAATATTCATGCATA
1 ATCAC--AATACTCAT--ATA
**
33218855 TATCACAATACTTTTATA
1 -ATCACAATACTCATATA
33218873 ATCACA
1 ATCACA
33218879 TAACATTCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
16 7 0.11
17 18 0.29
18 10 0.16
19 14 0.22
20 6 0.10
21 3 0.05
22 5 0.08
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (17 bp):
ATCACAATACTCATATA
Found at i:33218866 original size:39 final size:39
Alignment explanation
Indices: 33218735--33218905 Score: 156
Period size: 39 Copynumber: 4.4 Consensus size: 39
33218725 TCACTTTTAA
* ** *
33218735 GCATATATCACATTACAAATATAATCACATATCACATT-TT
1 GCATATATCACAATACTCATATAATCACATA--ACATTCAT
* *
33218775 CGCATAGATCACAATACACATATAATCACAT---A-TCAT
1 -GCATATATCACAATACTCATATAATCACATAACATTCAT
* * *
33218811 TCATATGTCACAATACTCATATAATCACATAATATTCAT
1 GCATATATCACAATACTCATATAATCACATAACATTCAT
** *
33218850 GCATATATCACAATACTTTTATAATCACATAACATTCAAA
1 GCATATATCACAATACTCATATAATCACATAACATTC-AT
33218890 G-ATATATCACAATACT
1 GCATATATCACAATACT
33218906 AAAAAACATA
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
35 27 0.25
36 2 0.02
38 1 0.01
39 51 0.46
40 2 0.02
41 27 0.25
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (39 bp):
GCATATATCACAATACTCATATAATCACATAACATTCAT
Found at i:33221076 original size:17 final size:17
Alignment explanation
Indices: 33221042--33221081 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
33221032 CCCAGTGCAC
* *
33221042 TGAC-ATGAATATGTAA
1 TGACAATGAAAATGAAA
33221058 TGACAATGAAAATGAAA
1 TGACAATGAAAATGAAA
33221075 TGACAAT
1 TGACAAT
33221082 TTATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.25
Consensus pattern (17 bp):
TGACAATGAAAATGAAA
Found at i:33231288 original size:28 final size:28
Alignment explanation
Indices: 33231248--33231377 Score: 163
Period size: 28 Copynumber: 4.7 Consensus size: 28
33231238 TCAAGGTCTA
* * *
33231248 CCACAAAAGCTTCCTTTAATAGTGATAG
1 CCACAAAGGCTTCCTTTAATAGAGATTG
* * *
33231276 CCACAAAGGCTTCC-TTAACAAAGATCG
1 CCACAAAGGCTTCCTTTAATAGAGATTG
*
33231303 CCACAAAGTCTTCCTTTAATAGAGATTG
1 CCACAAAGGCTTCCTTTAATAGAGATTG
* *
33231331 CCTCAAAGGCTTCCTTTAATAGACATTG
1 CCACAAAGGCTTCCTTTAATAGAGATTG
*
33231359 CCACAAAGACTTCCTTTAA
1 CCACAAAGGCTTCCTTTAA
33231378 CAGTGATTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.25
28 65 0.75
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
CCACAAAGGCTTCCTTTAATAGAGATTG
Found at i:33231316 original size:55 final size:55
Alignment explanation
Indices: 33231248--33231384 Score: 168
Period size: 55 Copynumber: 2.5 Consensus size: 55
33231238 TCAAGGTCTA
*
33231248 CCACAAAAGCTTCCTTTAATAGTGATAGCCACAAAGGCTTCC-TTAACAAAGATCG
1 CCAC-AAAGCTTCCTTTAATAGTGATAGCCACAAAGGCTTCCTTTAACAAACATCG
* * * * * *
33231303 CCACAAAGTCTTCCTTTAATAGAGATTGCCTCAAAGGCTTCCTTTAATAGACATTG
1 CCACAAAG-CTTCCTTTAATAGTGATAGCCACAAAGGCTTCCTTTAACAAACATCG
*
33231359 CCACAAAGACTTCCTTTAACAGTGAT
1 CCACAAAG-CTTCCTTTAATAGTGAT
33231385 TTAGGCGATA
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
54 4 0.06
55 34 0.49
56 32 0.46
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (55 bp):
CCACAAAGCTTCCTTTAATAGTGATAGCCACAAAGGCTTCCTTTAACAAACATCG
Found at i:33236742 original size:51 final size:51
Alignment explanation
Indices: 33236622--33236806 Score: 173
Period size: 50 Copynumber: 3.7 Consensus size: 51
33236612 GAACTGATGG
* * * * * *
33236622 TCACGTGTGTAGTGCTATGTCCAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTAAT-GA
* *
33236672 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCT-TACCAGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG-TGTACCAGATAGTAAT-GA
* * * * *
33236723 TCACATGTGTAGTACTATGTGCAGACTACTACGTGTATCAGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTAATGA
* *
33236774 TCACACGTGTTG-ACTATGTGCAGGCTACTATGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGT
33236807 TAACCGAACA
Statistics
Matches: 111, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
50 55 0.50
51 54 0.49
52 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTAATGA
Found at i:33236752 original size:101 final size:101
Alignment explanation
Indices: 33236622--33236805 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 101
33236612 GAACTGATGG
* * * * *
33236622 TCACGTGTGTAGTGCTATGTCCAGGCTACTACGTGTACCAGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTCCAGACTACTACGTGTACCAG-ATGATAATGGTCACACGTGTAG-
33236685 ACTATGTGCAGGCTACTATGCTTACCAGATAGTTTCGA
64 ACTATGTGCAGGCTACTATGCTTACCAGATAGTTTCGA
* * * *
33236723 TCACATGTGTAGTACTATGTGCAGACTACTACGTGTATCAGATGGTAATGGTCACACGTGTTGAC
1 TCACATGTGTAGTACTATGTCCAGACTACTACGTGTACCAGATGATAATGGTCACACGTGTAGAC
33236788 TATGTGCAGGCTACTATG
66 TATGTGCAGGCTACTATG
33236806 TTAACCGAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
100 4 0.06
101 57 0.79
102 11 0.15
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTCCAGACTACTACGTGTACCAGATGATAATGGTCACACGTGTAGAC
TATGTGCAGGCTACTATGCTTACCAGATAGTTTCGA
Found at i:33239739 original size:49 final size:51
Alignment explanation
Indices: 33239672--33239775 Score: 135
Period size: 49 Copynumber: 2.1 Consensus size: 51
33239662 TTACAATCAT
* *
33239672 TTTTGAGAAATCCTTATTCATTTGT-AAATGAATT-CA-TTTCT-CATTTTCA
1 TTTTGAGAAAACCATATTCATTT-TCAAATG-ATTCCATTTTCTCCATTTTCA
*
33239721 TTTTGAGAAAACCATATTCATTTTCATATGATTCCATTTTCTCCATTTTCA
1 TTTTGAGAAAACCATATTCATTTTCAAATGATTCCATTTTCTCCATTTTCA
33239772 TTTT
1 TTTT
33239776 CATTTTCATT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
48 4 0.08
49 27 0.56
50 5 0.10
51 12 0.25
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.50
Consensus pattern (51 bp):
TTTTGAGAAAACCATATTCATTTTCAAATGATTCCATTTTCTCCATTTTCA
Found at i:33254275 original size:27 final size:26
Alignment explanation
Indices: 33254105--33254274 Score: 160
Period size: 27 Copynumber: 6.3 Consensus size: 26
33254095 AGAGGTCATT
** *
33254105 AAATGACCGAAATACTCCCATAGGGTA
1 AAATGACTAAAATAC-CCTATAGGGTA
**
33254132 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACTAAAATACCCT-ATAGGGTA
* *
33254159 AAACGACTAAAATACCCTCACAGGGTA
1 AAATGACTAAAATACCCT-ATAGGGTA
* * *
33254186 AAATGACTAAAATACCCCCATAAGTTA
1 AAATGACTAAAATA-CCCTATAGGGTA
* *
33254213 AAATGGCCAAAATATCCCTATAGGGTA
1 AAATGACTAAAATA-CCCTATAGGGTA
* *
33254240 AAATGACTGAAATACCTCTAGAGGGTA
1 AAATGACTAAAATACC-CTATAGGGTA
33254267 AAATGACT
1 AAATGACT
33254275 GTTATACCCC
Statistics
Matches: 120, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.03
27 113 0.94
28 3 0.03
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (26 bp):
AAATGACTAAAATACCCTATAGGGTA
Found at i:33254284 original size:81 final size:81
Alignment explanation
Indices: 33254105--33254274 Score: 218
Period size: 81 Copynumber: 2.1 Consensus size: 81
33254095 AGAGGTCATT
** * * *
33254105 AAATGACCGAAATACTCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAACGACTAAA
1 AAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAACGACTAAA
33254170 ATACCCTCACAGGGTA
66 ATACCCTCACAGGGTA
* * * *
33254186 AAATGACTAAAATACCCCCATAAGTTAAAATGGCCAAAATATCCCT-ATAGGGTAAAATGACTGA
1 AAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATA-CCCTCATAGGGTAAAACGACTAA
*
33254250 AATA-CCTCTAGAGGGTA
65 AATACCCTC-ACAGGGTA
33254267 AAATGACT
1 AAATGACT
33254275 GTTATACCCC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 4 0.05
81 69 0.90
82 4 0.05
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (81 bp):
AAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAACGACTAAA
ATACCCTCACAGGGTA
Found at i:33254513 original size:26 final size:26
Alignment explanation
Indices: 33254436--33254516 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
33254426 TGGAGGAAGT
*
33254436 ATACTATTACTAGTAGCTTTGTTGCA
1 ATACTATTACTAGTAGCTTTGTTGCG
* * *
33254462 ATACTGTTACTAGCAGCTTTGCTGCG
1 ATACTATTACTAGTAGCTTTGTTGCG
*
33254488 ATACTATTACTGGTAGCTTTGTTGCG
1 ATACTATTACTAGTAGCTTTGTTGCG
33254514 ATA
1 ATA
33254517 TTGGTGTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (26 bp):
ATACTATTACTAGTAGCTTTGTTGCG
Found at i:33254684 original size:33 final size:33
Alignment explanation
Indices: 33254633--33254712 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 33
33254623 ATATTGTACT
33254633 GGGCTAAGGCCCACACTGTTACTG-TA-T---TA
1 GGGCTAAGGCCCACACTG-TACTGTTACTGAATA
33254662 -GGCTAAGGCCCACACTGTACTGTTACTGAATA
1 GGGCTAAGGCCCACACTGTACTGTTACTGAATA
* *
33254694 GGGCTCAGGCCCAGACTGT
1 GGGCTAAGGCCCACACTGT
33254713 CACTACTTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 5 0.12
28 19 0.44
29 1 0.02
32 2 0.05
33 16 0.37
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (33 bp):
GGGCTAAGGCCCACACTGTACTGTTACTGAATA
Found at i:33264967 original size:5 final size:6
Alignment explanation
Indices: 33264942--33264984 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
33264932 CTATATATAC
* *
33264942 AATTTT AATTTTTT ATTTTT TATTTT AATTTT AATTTT AATTT
1 AATTTT AA--TTTT AATTTT AATTTT AATTTT AATTTT AATTT
33264985 CAGGTTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
AATTTT
Found at i:33268114 original size:22 final size:22
Alignment explanation
Indices: 33268089--33268139 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
33268079 TTACTACCTT
33268089 ATGTCACTGAGTTGACGTTCCC
1 ATGTCACTGAGTTGACGTTCCC
33268111 ATGTCACTGAGTTGACGTTCCC
1 ATGTCACTGAGTTGACGTTCCC
33268133 ATGTCAC
1 ATGTCAC
33268140 CAGTCAAGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGTCACTGAGTTGACGTTCCC
Found at i:33270017 original size:4 final size:4
Alignment explanation
Indices: 33269992--33270034 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
33269982 TGGTTTATCG
*
33269992 ATTT ATTT CATTT TTTT GATTT ATTT ATTT ATTT ATTTT ATTT
1 ATTT ATTT -ATTT ATTT -ATTT ATTT ATTT ATTT A-TTT ATTT
33270035 CTCTAGTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 23 0.68
5 11 0.32
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:33274474 original size:58 final size:59
Alignment explanation
Indices: 33274410--33274522 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 59
33274400 TTCAGGTTAT
* *
33274410 TTTCATTTTTT-TAGAAAACAATATTCATTTCCAAATGATTT-CATTTCTCCATTTTAAG
1 TTTCATTTTTTGGAGAAAACAATAATCATTTCCAAA-GATTTCCATTTCTCCATTTTAAG
* ** *
33274468 TTTCATTTTTTGGATAAAACGTTAATCATTTCCAAAGTTTTCCATTTCTCCATTT
1 TTTCATTTTTTGGAGAAAACAATAATCATTTCCAAAGATTTCCATTTCTCCATTT
33274523 CACCATTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 15 0.32
59 32 0.68
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTCATTTTTTGGAGAAAACAATAATCATTTCCAAAGATTTCCATTTCTCCATTTTAAG
Found at i:33282366 original size:40 final size:40
Alignment explanation
Indices: 33282283--33282545 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
33282273 TTGAATGCTG
* * * * * *
33282283 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
33282323 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
33282363 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
33282403 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
33282443 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33282483 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33282522 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33282546 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:33282565 original size:79 final size:80
Alignment explanation
Indices: 33282322--33282580 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
33282312 AAGTGAATAT
* * * * * * *
33282322 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
33282386 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
33282402 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
33282467 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
33282482 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
33282546 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
33282561 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
33282581 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:33285503 original size:33 final size:33
Alignment explanation
Indices: 33285461--33285527 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
33285451 GACTTTACCT
33285461 ATTGAGTCTACTGAGTTCGTAATTCGGGTGTCA
1 ATTGAGTCTACTGAGTTCGTAATTCGGGTGTCA
33285494 ATTGAGTCTACTGAGTTCGTAATTCGGGTGTCA
1 ATTGAGTCTACTGAGTTCGTAATTCGGGTGTCA
33285527 A
1 A
33285528 ATCCCTGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (33 bp):
ATTGAGTCTACTGAGTTCGTAATTCGGGTGTCA
Found at i:33290353 original size:40 final size:40
Alignment explanation
Indices: 33290270--33290532 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
33290260 TTGAATGCTG
* * * * * *
33290270 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
33290310 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
33290350 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
33290390 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
33290430 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33290470 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33290509 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33290533 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:33290552 original size:79 final size:80
Alignment explanation
Indices: 33290309--33290567 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
33290299 AAGTGAATAT
* * * * * * *
33290309 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
33290373 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
33290389 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
33290454 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
33290469 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
33290533 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
33290548 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
33290568 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:33294507 original size:25 final size:25
Alignment explanation
Indices: 33294473--33294595 Score: 88
Period size: 25 Copynumber: 4.9 Consensus size: 25
33294463 AGGGTGACAG
*
33294473 ATTTGTAGCTCGTAAGAGCATACCA
1 ATTTATAGCTCGTAAGAGCATACCA
* **
33294498 ATTTATAGCTCGTAAGAGCTTACTG
1 ATTTATAGCTCGTAAGAGCATACCA
* * * * *
33294523 ATTCATATCTCGTGAGAGCCTACCG
1 ATTTATAGCTCGTAAGAGCATACCA
* *
33294548 ATCTT-CAGCTC-AAATGAGCATACCA
1 AT-TTATAGCTCGTAA-GAGCATACCA
* * *
33294573 ATTCATAGCTTGTATGAGCATAC
1 ATTTATAGCTCGTAAGAGCATAC
33294596 ATGTACATGA
Statistics
Matches: 73, Mismatches: 21, Indels: 8
0.72 0.21 0.08
Matches are distributed among these distances:
24 2 0.03
25 69 0.95
26 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (25 bp):
ATTTATAGCTCGTAAGAGCATACCA
Found at i:33296246 original size:101 final size:102
Alignment explanation
Indices: 33296129--33296311 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 102
33296119 AACTGATGGC
** *
33296129 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-AA-TGATAGGTTGCATGTGTAGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGAT-GGTCACATGTCTAGTA
*
33296192 CTATGTGCAGGCTACTATGCATACCGGATAGCTTCAAT
65 CTATGCGCAGGCTACTATGCATACCGGATAGCTTCAAT
* *
33296230 CACGTGTGTAGTACTATGTGCAGGCTACTGCGTGTATCAGAAAGTGATGGTCACATGTCTAGTAC
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTCTAGTAC
33296295 TATGCGCAGGCTACTAT
66 TATGCGCAGGCTACTAT
33296312 ATGAACCTGT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.51
102 32 0.43
103 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTCTAGTAC
TATGCGCAGGCTACTATGCATACCGGATAGCTTCAAT
Found at i:33296293 original size:51 final size:52
Alignment explanation
Indices: 33296133--33296310 Score: 179
Period size: 51 Copynumber: 3.5 Consensus size: 52
33296123 GATGGCCACG
**
33296133 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-AA-TGATAGGTTGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATAGGTCACA
* ** * * * *
33296183 TGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCT--TCA-ATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAG-TGAT-AGGTCACA
* *
33296234 TGTGTAGTACTATGTGCAGGCTACTGCGTGTATCAGAAAGTGAT-GGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATAGGTCACA
* *
33296285 TGTCTAGTACTATGCGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
33296311 TATGAACCTG
Statistics
Matches: 100, Mismatches: 21, Indels: 13
0.75 0.16 0.10
Matches are distributed among these distances:
50 33 0.33
51 64 0.64
52 2 0.02
53 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (52 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTGATAGGTCACA
Found at i:33296559 original size:16 final size:16
Alignment explanation
Indices: 33296538--33296569 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33296528 TGATTGAAAG
*
33296538 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
33296554 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
33296570 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:33298595 original size:15 final size:15
Alignment explanation
Indices: 33298575--33298604 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33298565 AATATGGTTT
33298575 AATGATAGAAGATTA
1 AATGATAGAAGATTA
*
33298590 AATGATAGATGATTA
1 AATGATAGAAGATTA
33298605 TGCATAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (15 bp):
AATGATAGAAGATTA
Found at i:33316335 original size:10 final size:10
Alignment explanation
Indices: 33316292--33316346 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
33316282 AATATGAACA
33316292 TGATTAATTT
1 TGATTAATTT
*
33316302 TAATTAATTT
1 TGATTAATTT
*
33316312 TATAGTTAATTT
1 T-GA-TTAATTT
33316324 TGATTAATTT
1 TGATTAATTT
* *
33316334 TGACTATTTT
1 TGATTAATTT
33316344 TGA
1 TGA
33316347 CAGATTCGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
10 28 0.74
11 2 0.05
12 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (10 bp):
TGATTAATTT
Found at i:33351280 original size:15 final size:15
Alignment explanation
Indices: 33351260--33351292 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33351250 ACAAAAACAG
*
33351260 TTCGAATCTTCAAGC
1 TTCGAATCGTCAAGC
33351275 TTCGAATCGTCAAGC
1 TTCGAATCGTCAAGC
33351290 TTC
1 TTC
33351293 ACCCCTACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (15 bp):
TTCGAATCGTCAAGC
Found at i:33353335 original size:65 final size:65
Alignment explanation
Indices: 33353231--33353361 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 65
33353221 CAAATAGGGG
* *
33353231 TCACACGACTGTATGATGGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
1 TCACACAACTGTATGATAGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
* * *
33353296 TCACACAACTGTATGATAGGTTGAGGCCGTTTGGAGCTAAGTGACATGGTCGTGTTGTCAACTGA
1 TCACACAACTGTATGATAGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
33353361 T
1 T
33353362 GTCATGTAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (65 bp):
TCACACAACTGTATGATAGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
Found at i:33357436 original size:44 final size:44
Alignment explanation
Indices: 33357283--33358227 Score: 196
Period size: 44 Copynumber: 21.6 Consensus size: 44
33357273 ATTTTAATCC
* * * ** *
33357283 GCTCCAACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCT
1 GCTCC-ACTGCAACCTCAGGGAGATAAGATTTTCATCTTCGATCT
*
33357328 GCTCCACTGTAACCTCAGGGAGATAAGATTTTCCATCTTCGATCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTT-CATCTTCGATCT
* * ** * ** *
33357373 GCTCTACTAC-TGCTTAGGGAGATAAGATTTTTTTCTTCGGTCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTTCATCTTCGATCT
** * * *
33357416 GCTCCACTGCAACCTCAGGGAGATAAGA-CCTGAT-GT-GATTT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTTCATCTTCGATCT
* *** * * *
33357457 ACTTTGCTGCAACTTCAGAGAGATAAGATCTATT-AT-TT-GAATCC
1 GCTCCACTGCAACCTCAGGGAGATAAGAT-T-TTCATCTTCG-ATCT
* * ** * * * **
33357501 GCTCTACTCCCGCTTCAGGGAGATAGGATTATCGGCTTC-ATTCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTTCATCTTCGA-TCT
* * * *
33357545 GCTCCACTGCAAACTCAGGGAGATAAGA-TCTGA--TGCGATCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTTCATCTTCGATCT
* * * * * * *
33357586 ACTCTATTGCAACCTTAGAGG-GATAAGATCTGTT-ATATT-AATCC
1 GCTCCACTGCAACCTCAG-GGAGATAAGAT-T-TTCATCTTCGATCT
* * * ** * *
33357630 GCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCAATGT
1 GCTCCACTGCAACCTCAGGGAGATAAGATT-TTCATCTTCGATCT
* * * * * * * *
33357674 ACTCTACTGTATCCTCAGGGAGGTAAAATCTGTCATCTTCAATCT
1 GCTCCACTGCAACCTCAGGGAGATAAGAT-TTTCATCTTCGATCT
* ** * * *** *
33357719 GCTCCACTAC-TGCTTAGGGAGATATGATCTGAGATTCTTCGGTCT
1 GCTCCACTGCAACCTCAGGGAGATAAGAT-TTTCA-TCTTCGATCT
* * ** * * *
33357764 GCTCCACTGTAACTTCAGGGAGATAAGA-CCTGAT-GT-GATCA
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTTCATCTTCGATCT
* * * * * * *
33357805 ACTCTACTACAACTTCAGAGAGATAAGATCTGTT-AT-TTCAATCC
1 GCTCCACTGCAACCTCAGGGAGATAAGAT-T-TTCATCTTCGATCT
* * * * * * ** *
33357849 ACTCCACTACAACTTCAGGGCGATAGGATTATCGGCTTCAATCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTTCATCTTCGATCT
* *
33357893 GCTCCACTGCAACCTCATGGAGATAAGATTTGCCATCTTC-AGTCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTT-TCATCTTCGA-TCT
* * * * * *
33357938 GCCCCACTGCAACTTCAGGGGGATAAGACTTGC-T-TTCTCAGTCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTTCATCTTC-GA-TCT
* * * ** * *
33357982 GTTCCGCTGCCACCTCAGGGAGATAAGA-CCTGAT-GT-GATCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTTCATCTTCGATCT
* ** * ** * *
33358023 ACTCTGCTGCAACTTCAGATAGATAAGATCTATT-AT-TT-GAACCC
1 GCTCCACTGCAACCTCAGGGAGATAAGAT-T-TTCATCTTCG-ATCT
* * * * * * *
33358067 GCTCCACTGCCACTTTAGGGAGATAGGATTATCGGT-TTCAATCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTTTC-ATCTTCGATCT
* *
33358111 GCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTC-AGTCT
1 GCTCCACTGCAACCTCAGGGAGATAAGATTT-TCATCTTCGA-TCT
* * * * *
33358156 G-TGCCACTGCAACTTCAGGGGGATAAGACTTGC-T-TTCTCAGTCT
1 GCT-CCACTGCAACCTCAGGGAGATAAGATTTTCATCTTC-GA-TCT
* *
33358200 GCTCCGCTGCAACCTCAAGGAGATAAGA
1 GCTCCACTGCAACCTCAGGGAGATAAGA
33358228 CTTGATGTGA
Statistics
Matches: 643, Mismatches: 209, Indels: 97
0.68 0.22 0.10
Matches are distributed among these distances:
41 100 0.16
42 15 0.02
43 47 0.07
44 349 0.54
45 120 0.19
46 12 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACCTCAGGGAGATAAGATTTTCATCTTCGATCT
Found at i:33357525 original size:129 final size:129
Alignment explanation
Indices: 33357373--33357669 Score: 341
Period size: 129 Copynumber: 2.3 Consensus size: 129
33357363 TCTTCGATCT
* * * *** * *
33357373 GCTCTACTACTGCTT-AGGGAGATAAGATTTTTTTCTTCGGTCTGCTCCACTGCAACCTCAGGGA
1 GCTCTACTACAGCTTCAGGGAGATAGGATTATCGGCTTCAGTCTGCTCCACTGCAAACTCAGGGA
* * * *
33357437 GATAAGACCTGATGTGATTTACTTTGCTGCAA-CTTCAGAGAGATAAGATCTATTAT-TTGAATC
66 GATAAGACCTGATGCGATCTACTCTACTGCAACCTT-AGAGAGATAAGATCTATTATATT-AATC
33357500 C
129 C
* * *
33357501 GCTCTACTCCCGCTTCAGGGAGATAGGATTATCGGCTTCATTCTGCTCCACTGCAAACTCAGGGA
1 GCTCTACTACAGCTTCAGGGAGATAGGATTATCGGCTTCAGTCTGCTCCACTGCAAACTCAGGGA
* * * *
33357566 GATAAGATCTGATGCGATCTACTCTATTGCAACCTTAGAGGGATAAGATCTGTTATATTAATCC
66 GATAAGACCTGATGCGATCTACTCTACTGCAACCTTAGAGAGATAAGATCTATTATATTAATCC
* * *
33357630 GCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCA
1 GCTCTACTACAGCTTCAGGGAGATAGGATTA-TCGGCTTCA
33357670 ATGTACTCTA
Statistics
Matches: 143, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
128 13 0.09
129 124 0.87
130 6 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (129 bp):
GCTCTACTACAGCTTCAGGGAGATAGGATTATCGGCTTCAGTCTGCTCCACTGCAAACTCAGGGA
GATAAGACCTGATGCGATCTACTCTACTGCAACCTTAGAGAGATAAGATCTATTATATTAATCC
Found at i:33357691 original size:129 final size:129
Alignment explanation
Indices: 33357417--33357705 Score: 341
Period size: 129 Copynumber: 2.2 Consensus size: 129
33357407 CTTCGGTCTG
* * * * *
33357417 CTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATTTACTTTGCTGCAACTTCAGAGAGATA
1 CTCCACTGCAACCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATA
* ** * *
33357482 AGATCTATTATTTGAATCCGCTCTACTCCCGCTTCAGGGAGATAGGATTATCGGCTTCATTCTG
66 AGATCTATTATTTGAATCCGCTCCACTCCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTA
* * *
33357546 CTCCACTGCAAACTCAGGGAGATAAGATCTGATGCGATCTACTCTATTGCAACCTT-AGAGGGAT
1 CTCCACTGCAACCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGCAA-CTTCAGAGAGAT
* * *
33357610 AAGATCTGTTATATT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCAATG
65 AAGATCTATTAT-TTGAATCCGCTCCACTCCAACTTCAGGGAGATAGGATTA-TCGGCTTCAATC
33357673 TA
128 TA
* * * * *
33357675 CTCTACTGTATCCTCAGGGAGGTAAAATCTG
1 CTCCACTGCAACCTCAGGGAGATAAGATCTG
33357706 TCATCTTCAA
Statistics
Matches: 135, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
129 129 0.96
130 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (129 bp):
CTCCACTGCAACCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATA
AGATCTATTATTTGAATCCGCTCCACTCCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTA
Found at i:33357867 original size:348 final size:347
Alignment explanation
Indices: 33357211--33357921 Score: 998
Period size: 348 Copynumber: 2.0 Consensus size: 347
33357201 CGGCTACAAC
* * * * *
33357211 CTCAGGAAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTATT
1 CTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATA
*
33357276 TTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAAC
66 TTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGTAAC
* * * * ***
33357341 CTCAGGGAGATAAGATTTTCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATTTTTT
131 CTCAGGGAGATAAAATTGTCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTAGAT
** * * *
33357406 TCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATTTACTTTGCTGCAACT
196 TCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCAACTCTACTACAACT
* * * * **
33357471 TCAGAGAGATAAGATCTATTATTTGAATCCGCTCTACTCCCGCTTCAGGGAGATAGGATTATCGG
261 TCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGG
*
33357536 CTTCATTCTGCTCCACTGCAAA
326 CTTCAATCTGCTCCACTGCAAA
* * *
33357558 CTCAGGGAGATAAGATCTGATGCGATCTACTCTATTGCAACCTT-AGAGGGATAAGATCTGTTAT
1 CTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGCAA-CTTCAGAGAGATAAGATCTATTAT
* *
33357622 ATTAATCCGCTCC-ACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCAATGTACTCTACTGTA
65 ATTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTA-TCGGCTTCAATCTACTCCACTGTA
* * *
33357685 TCCTCAGGGAGGTAAAATCTGT-CATCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCT
129 ACCTCAGGGAGATAAAAT-TGTCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T
* *
33357749 GAGATTCTTCGGTCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATGTGATCAACTCTACTA
192 -AGATTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCAACTCTACTA
* *
33357814 CAACTTCAGAGAGATAAGATCTGTTATTTCAATCCACTCCACTACAACTTCAGGGCGATAGGATT
256 CAACTTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATT
*
33357879 ATCGGCTTCAATCTGCTCCACTGCAAC
321 ATCGGCTTCAATCTGCTCCACTGCAAA
*
33357906 CTCATGGAGATAAGAT
1 CTCAGGGAGATAAGAT
33357922 TTGCCATCTT
Statistics
Matches: 320, Mismatches: 39, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
346 97 0.30
347 69 0.22
348 154 0.48
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (347 bp):
CTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATA
TTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGTAAC
CTCAGGGAGATAAAATTGTCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTAGAT
TCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCAACTCTACTACAACT
TCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGG
CTTCAATCTGCTCCACTGCAAA
Found at i:33358073 original size:348 final size:345
Alignment explanation
Indices: 33357211--33358138 Score: 804
Period size: 348 Copynumber: 2.7 Consensus size: 345
33357201 CGGCTACAAC
* * * * ** * *
33357211 CTCAGGAAGATAAGACCTGATGTGATCTACTCTGCTGCAA-CTTCAGAGAGATAAGATCTATTAT
1 CTCAGGGAGATAAGATCTGATGCGATCTACCCCACTGCAACCTT-AGAGGGATAAGATCTGTTAT
* * * * * * * *
33357275 TTTAATCCGCTCCAACTGCAACTTCAGGGAGATAGGATTA-TCGGCTTCAATCTGCTCCACTGTA
65 ATCAATCCGCTCC-ACTGCAACCTCAGGGAGATAAGATGAGT-GGC-TCAATCTACTCTACTGCA
* * * * * * * *
33357339 ACCTCAGGGAGATAAGAT-TTTCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATTT
127 ACCTCAGAGAGATAAAATCTAT-CATCTTCAACCCGCTCCACTACTGCTTAGGGAGATAAGATTA
** ** * * *
33357403 TTTTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATTTACTTTGCTGCA
191 GATTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCAACTCTACTACA
* * * * **
33357468 ACTTCAGAGAGATAAGATCTATTATTTGAATCCGCTCTACTCCCGCTTCAGGGAGATAGGATTAT
256 ACTTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTAT
*
33357533 CGGCTTCATTCTGCTCCACTGCAAA
321 CGGCTTCAATCTGCTCCACTGCAAA
* * *
33357558 CTCAGGGAGATAAGATCTGATGCGATCTACTCTATTGCAACCTTAGAGGGATAAGATCTGTTATA
1 CTCAGGGAGATAAGATCTGATGCGATCTACCCCACTGCAACCTTAGAGGGATAAGATCTGTTATA
* * * * * * *
33357623 TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCTACTGTATCC
66 TCAATCCGCTCCACTGCAACCTCAGGGAGATAAGATGAGTGGC-TCAATCTACTCTACTGCAACC
* * * * * *
33357688 TCAGGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCTGAGA
130 TCAGAGAGATAAAATCTATCATCTTCAACCCGCTCCACTACTGCTTAGGGAGATAAGAT-T-AGA
* *
33357753 TTCTTCGGTCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATGTGATCAACTCTACTACAAC
193 TTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCAACTCTACTACAAC
* *
33357818 TTCAGAGAGATAAGATCTGTTATTTCAATCCACTCCACTACAACTTCAGGGCGATAGGATTATCG
258 TTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCG
*
33357883 GCTTCAATCTGCTCCACTGCAAC
323 GCTTCAATCTGCTCCACTGCAAA
* * * * *
33357906 CTCATGGAGATAAGATTTGCCAT-CTTCAGTCTGCCCCACTGCAA-CTTCAGGGGGATAAGA-CT
1 CTCAGGGAGATAAGATCTG--ATGC--GA-TCTACCCCACTGCAACCTT-AGAGGGATAAGATC-
* * * * * * *
33357968 TGCTT-TCTCAGTCTGTTCCGCTGCCACCTCAGGGAGATAAGACCTGA-T-G-T-GATCTACTCT
59 TG-TTATATCAATCCGCTCCACTGCAACCTCAGGGAGATAAGA--TGAGTGGCTCAATCTACTCT
* * * * * * * **
33358028 GCTGCAACTTCAGATAGATAAGATCTATTAT-TTGAACCCGCTCCACTGCCACTTTAGGGAGATA
121 ACTGCAACCTCAGAGAGATAAAATCTATCATCTTCAACCCGCTCCACTACTGC-TTAGGGAGATA
* * ** *
33358092 GGATTATCG-GT-TTCAATCTGCTCCACTACAACCTCAGGGAGATAAGA
185 AGATTA--GATTCTTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
33358139 TTTGCCATCT
Statistics
Matches: 482, Mismatches: 81, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
346 97 0.20
347 101 0.21
348 173 0.36
349 45 0.09
350 3 0.01
351 5 0.01
352 53 0.11
353 3 0.01
354 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (345 bp):
CTCAGGGAGATAAGATCTGATGCGATCTACCCCACTGCAACCTTAGAGGGATAAGATCTGTTATA
TCAATCCGCTCCACTGCAACCTCAGGGAGATAAGATGAGTGGCTCAATCTACTCTACTGCAACCT
CAGAGAGATAAAATCTATCATCTTCAACCCGCTCCACTACTGCTTAGGGAGATAAGATTAGATTC
TTCGGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCAACTCTACTACAACTTC
AGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCT
TCAATCTGCTCCACTGCAAA
Found at i:33358074 original size:218 final size:217
Alignment explanation
Indices: 33357542--33358327 Score: 961
Period size: 218 Copynumber: 3.6 Consensus size: 217
33357532 TCGGCTTCAT
* * * * *
33357542 TCTGCTCCACTGCAAACTCAGGGAGATAAGATCTGATGCGATCTACTCTATTGCAACCTT-AGAG
1 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAA-CTTCAGAG
* *
33357606 GGATAAGATCTGTTATATTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAA
65 AGATAAGATCTATTAT-TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAA
* * * * * * * * * * * * **
33357671 TGTACTCTACTGTATCCTCAGGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTACTGCTT-A
129 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
* * ** *
33357735 GGGAGATATGA-TCTGAGATTCTTCGG
194 GGGGGATAAGACT-TG-CTTTC-TCAG
* * * * *
33357761 TCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATGTGATCAACTCTACTACAACTTCAGAGA
1 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
* * * *
33357826 GATAAGATCTGTTATTTCAATCCACTCCACTACAACTTCAGGGCGATAGGATTA-TCGGCTTCAA
66 GATAAGATCTATTATTT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCAA
*
33357890 TCTGCTCCACTGCAACCTCATGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
129 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
33357955 GGGGGATAAGACTTGCTTTCTCAG
194 GGGGGATAAGACTTGCTTTCTCAG
* * * *
33357979 TCTGTTCCGCTGCCACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGATA
1 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
* * * *
33358044 GATAAGATCTATTATTTGAACCCGCTCCACTGCCACTTTAGGGAGATAGGATTA-TCGGTTTCAA
66 GATAAGATCTATTATTT-AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCAA
* **
33358108 TCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGTGCCACTGCAACTTCA
129 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
33358173 GGGGGATAAGACTTGCTTTCTCAG
194 GGGGGATAAGACTTGCTTTCTCAG
* * *
33358197 TCTGCTCCGCTGCAACCTCAAGGAGATAAGACTTGATGTGATCTACTCTGCTGCAACTTCAGAGA
1 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
* * *
33358262 GATAAGATCTATTGTTTTTAATCCGCTCTACTGTAACTTCAGGGAGATAGGATTAGTGGCTTCAA
66 GATAAGATCTA-T-TATTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAA
33358327 T
129 T
33358328 GTACTCCAGT
Statistics
Matches: 493, Mismatches: 66, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
218 276 0.56
219 199 0.40
220 17 0.03
221 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (217 bp):
TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
GATAAGATCTATTATTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATC
TGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGG
GGGATAAGACTTGCTTTCTCAG
Found at i:33358228 original size:44 final size:44
Alignment explanation
Indices: 33357890--33358231 Score: 198
Period size: 44 Copynumber: 7.8 Consensus size: 44
33357880 TCGGCTTCAA
* * **
33357890 TCTGCTCCACTGCAACCTCATGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTTC-TCAG
* * *
33357935 TCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTCAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTTCTCAG
* * * * * * *
33357979 TCTGTTCCGCTGCCACCTCAGGGAGATAAGACCTG--ATGTGA-
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTTCTCAG
* ** * ** * *
33358020 TCTACTCTGCTGCAACTTCAGATAGATAAGATCTAT--TATT-TGAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGA-CT-TGCT-TTCTCAG
* * * * * * * * *
33358064 CCCGCTCCACTGCCACTTTAGGGAGATAGGA-TTATCGGTT-TCAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTT-GC-TTTCTCAG
* * **
33358108 TCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTTC-TCAG
* *
33358153 TCTG-TGCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTCAG
1 TCTGCT-CCACTGCAACCTCAGGGAGATAAGACTTGCTTTCTCAG
* *
33358197 TCTGCTCCGCTGCAACCTCAAGGAGATAAGACTTG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTG
33358232 ATGTGATCTA
Statistics
Matches: 224, Mismatches: 59, Indels: 29
0.72 0.19 0.09
Matches are distributed among these distances:
41 25 0.11
42 5 0.02
43 5 0.02
44 118 0.53
45 71 0.32
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTTCTCAG
Found at i:33358367 original size:437 final size:437
Alignment explanation
Indices: 33357558--33358382 Score: 986
Period size: 437 Copynumber: 1.9 Consensus size: 437
33357548 CCACTGCAAA
* * * *
33357558 CTCAGGGAGATAAGATCTGATGCGATCTACTCTATTGCAACCTTAGAGGGATAAGATCTGTTATA
1 CTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACCTTAGAGAGATAAGATCTATTATA
* * * ** *
33357623 TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATGTACTCTACTGTATCC
66 TTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATCTACTCCACTACAACC
* * ** * *
33357688 TCAGGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCTGAGA
131 TCAGGGAGATAAAATCTGCCATCTTCAATCTGCTCCACTACAACTTAGGGAGATAAGATCTGACA
* * * *
33357753 TTCTTCGGTCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATGTGATCAACTCTACTACAAC
196 TTCTTCAGTCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGATGTGATCAACTCTACTACAAC
* *
33357818 TTCAGAGAGATAAGATCTGTTATTTCAATCCACTCCACTACAACTTCAGGGCGATAGGATTATCG
261 TTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCG
* * **
33357883 GCTTCAATCTGCTCCACTGCAACCTCATGGAGATAAGATTTGCCATCTTC-AGTCTGCCCCACTG
326 GCTTCAATCTACTCCACTGCAACCTCATGGAGATAAAATCCGCCATCTTCGA-TCTGCCCCACTG
33357947 CAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGTTCCGCTGCCAC
390 CAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGTTCCGCTGCCAC
* * *
33357995 CTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAA-CTTCAGATAGATAAGATCTATTAT
1 CTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACCTT-AGAGAGATAAGATCTATTAT
* * * *
33358059 -TTGAACCCGCTCCACTGCCACTTTAGGGAGATAGGATTA-TCGGTTTCAATCTGCTCCACTACA
65 ATT-AACCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGT-GGCTTCAATCTACTCCACTACA
* * * * *
33358122 ACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTG-TGCCACTGCAACTTCAGGGGGATAAGA-C
128 ACCTCAGGGAGATAAAATCTGCCATCTTCAATCTGCT-CCACTACAACTT-AGGGAGATAAGATC
* * * * *
33358185 TTG-CTTTC-TCAGTCTGCTCCGCTGCAACCTCAAGGAGATAAGACTTGATGTGATCTACTCTGC
191 -TGACATTCTTCAGTCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGATGTGATCAACTCTAC
* * * * * **
33358248 TGCAACTTCAGAGAGATAAGATCTATTGTTTTTAATCCGCTCTACTGTAACTTCAGGGAGATAGG
255 TACAACTTCAGAGAGATAAGATCTATT-ATTTCAATCCACTCCACTACAACTTCAGGGAGATAGG
* * * * *
33358313 ATTAGT-GGCTTCAATGTACTCCAGTGTATCCTCAAT-GAGGTAAAATCCGCCATCTTCGATCTG
319 ATTA-TCGGCTTCAATCTACTCCACTGCAACCTC-ATGGAGATAAAATCCGCCATCTTCGATCTG
*
33358376 CTCCACT
382 CCCCACT
33358383 ACTGTTTAGG
Statistics
Matches: 322, Mismatches: 56, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
436 79 0.25
437 227 0.70
438 16 0.05
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (437 bp):
CTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACCTTAGAGAGATAAGATCTATTATA
TTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTGGCTTCAATCTACTCCACTACAACC
TCAGGGAGATAAAATCTGCCATCTTCAATCTGCTCCACTACAACTTAGGGAGATAAGATCTGACA
TTCTTCAGTCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGATGTGATCAACTCTACTACAAC
TTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCG
GCTTCAATCTACTCCACTGCAACCTCATGGAGATAAAATCCGCCATCTTCGATCTGCCCCACTGC
AACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGTTCCGCTGCCAC
Found at i:33360847 original size:18 final size:18
Alignment explanation
Indices: 33360812--33360863 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
33360802 TTTTTTTTAT
*
33360812 TTTTTTTCATTTT-TTTGA
1 TTTTTTT-ATTTTGATTGA
33360830 TTTTCTTT-TTTTGATTGA
1 TTTT-TTTATTTTGATTGA
33360848 TTTTTTTATTTTGATT
1 TTTTTTTATTTTGATT
33360864 TTTTATTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.23
18 20 0.67
19 3 0.10
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.77
Consensus pattern (18 bp):
TTTTTTTATTTTGATTGA
Found at i:33360870 original size:13 final size:14
Alignment explanation
Indices: 33360811--33360867 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
33360801 TTTTTTTTTA
*
33360811 TTTT-TTTTCATTT
1 TTTTATTTTGATTT
*
33360824 TTTTGATTTT-CTTT
1 TTTT-ATTTTGATTT
33360838 TTTTGA--TTGATTT
1 TTTT-ATTTTGATTT
33360851 TTTTATTTTGATTT
1 TTTTATTTTGATTT
33360865 TTT
1 TTT
33360868 ATTGATTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 3 0.08
13 11 0.30
14 19 0.51
15 4 0.11
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTATTTTGATTT
Found at i:33361203 original size:90 final size:90
Alignment explanation
Indices: 33361012--33361191 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 90
33361002 CTTGAAGAGA
33361012 TAGAAACTTGACTTCAAATAGGCAAAGCTATGATGAGTCAACGAGAAAGGTATTGCCCCGGTAAA
1 TAGAAACTTGACTTCAAATAGGCAAAGCTATGATGAGTCAACGAGAAAGGTATTGCCCCGGTAAA
33361077 GAAATTTCATTGCATCATTCATACT
66 GAAATTTCATTGCATCATTCATACT
*
33361102 TAGAAACTTGACTTCAAATGGGCAAAGCTATGATGAGTCAACGAGAAAGGTATTGCCCCGGTAAA
1 TAGAAACTTGACTTCAAATAGGCAAAGCTATGATGAGTCAACGAGAAAGGTATTGCCCCGGTAAA
33361167 GAAATTTCATTGCATCATTCATACT
66 GAAATTTCATTGCATCATTCATACT
33361192 GCAAATTTTG
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (90 bp):
TAGAAACTTGACTTCAAATAGGCAAAGCTATGATGAGTCAACGAGAAAGGTATTGCCCCGGTAAA
GAAATTTCATTGCATCATTCATACT
Found at i:33365636 original size:3 final size:3
Alignment explanation
Indices: 33365628--33365655 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33365618 ATAAAGAAGG
33365628 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33365656 GGATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33379700 original size:27 final size:26
Alignment explanation
Indices: 33379670--33379736 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
33379660 ATATATAATT
33379670 ATTATAAAATAATTAAATTTTACTTAA
1 ATTATAAAATAATTAAATTTTACTT-A
* * *
33379697 ATTATTAACAT-TTTTAATTTTACTTA
1 ATTA-TAAAATAATTAAATTTTACTTA
* *
33379723 ATTTTATAATAATT
1 ATTATAAAATAATT
33379737 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
25 4 0.13
26 6 0.19
27 16 0.52
28 5 0.16
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTATAAAATAATTAAATTTTACTTA
Found at i:33379738 original size:27 final size:27
Alignment explanation
Indices: 33379677--33379738 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
33379667 ATTATTATAA
*
33379677 AATAA-TTAAATTTTACTTAAATTATT
1 AATAATTTTAATTTTACTTAAATTATT
* * *
33379703 AACATTTTTAATTTTACTT-AATTTTAT
1 AATAATTTTAATTTTACTTAAATTAT-T
33379730 AATAATTTT
1 AATAATTTT
33379739 TTATTAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
AATAATTTTAATTTTACTTAAATTATT
Found at i:33381175 original size:58 final size:58
Alignment explanation
Indices: 33381085--33381204 Score: 231
Period size: 58 Copynumber: 2.1 Consensus size: 58
33381075 CTTTGAGATA
33381085 TAGTCAAGAGATAAATGGATTTTGGTAGGTAAGTATGTTCATAAGTTAGAAAATTACT
1 TAGTCAAGAGATAAATGGATTTTGGTAGGTAAGTATGTTCATAAGTTAGAAAATTACT
*
33381143 TAGTCAAGAGATAAATGGATTTTGGTAGGTAAGTATGTTCATAAGTTAGCAAATTACT
1 TAGTCAAGAGATAAATGGATTTTGGTAGGTAAGTATGTTCATAAGTTAGAAAATTACT
33381201 TAGT
1 TAGT
33381205 TACCGTGAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.35
Consensus pattern (58 bp):
TAGTCAAGAGATAAATGGATTTTGGTAGGTAAGTATGTTCATAAGTTAGAAAATTACT
Found at i:33387519 original size:16 final size:15
Alignment explanation
Indices: 33387492--33387525 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
33387482 ATAACTAGTA
33387492 TATAATTATATTAAT
1 TATAATTATATTAAT
33387507 TATAATATATATTAAT
1 TATAAT-TATATTAAT
33387523 TAT
1 TAT
33387526 TATCAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:33392960 original size:383 final size:378
Alignment explanation
Indices: 33392253--33393002 Score: 968
Period size: 383 Copynumber: 2.0 Consensus size: 378
33392243 CTAACTAAAC
* * *
33392253 TCACTTTACAAAGTAGTCCTATTTCAACATCAAGCTTCAAACATCAACACTAACATCCAAAAAGC
1 TCACTTTACAAAATAATCCTATTCCAACATCAAGCTTCAAACATCAACACTAACATCCAAAAAGC
* * *
33392318 TTTAAAAACAACAATGGTAACTTTCAAAATCTTTGACAGTTTTATGACATAGTCCTTCGGTTAGC
66 TTTAAAAACAACAATGGTAACTTTCAAAATCTTTGACAGTTTTACGACA-A---CTTAGATTAGC
* *
33392383 TAGATTATGCTACAACGATATCAAAAACATCAAATTTACTAAAAATGGACATCAAATTCACTTAC
127 TAGATTAAGCTACAACGATATCAAAAACATCAAATTTACCAAAAATGGACATCAAATTCACTTAC
* * *
33392448 ATCCAAGACAAATACTTGGCCAAATTTCTCAAGGTCTACTAATGGTGATTTTCGGTCAAAGAGGG
192 ATCCAAGACAAATACTTGGCCAAATTTCTCAAGGTCTACCAATGGTGATTCTCGATCAAAGAGGG
* *
33392513 TGAAATAAAGGTGGGTGTTTTGTTTCTTTTGTTTATCTTATTTATTTATTTACTAATTTTCCCTT
257 TGAAATAAAGATGGGTGTTTTGTTTCTTTTGTTTATCTTATTTATTTAATTACTAATTTTCCCTT
33392578 CAAAATTATTTCATAATTTCCAATCAAAACATGTGTAAACCATTAACAAAATATTTAA
322 CAAAA-TATTTCATAATTTCCAATCAAAACATGTGTAAACCATTAACAAAATATTTAA
* * * * * * *
33392636 TCACTTTACAAAATAATCCTATTCCAAGATCATGCTTCAAACTTCACCATTAACATCTAAAATGC
1 TCACTTTACAAAATAATCCTATTCCAACATCAAGCTTCAAACATCAACACTAACATCCAAAAAGC
* * *
33392701 TTTAAAAAGAACAATGGTAACTTTCAACATCTTTGATAGTTTTACGAC-A-TTAGATTAGCTAGA
66 TTTAAAAACAACAATGGTAACTTTCAAAATCTTTGACAGTTTTACGACAACTTAGATTAGCTAGA
* * * *
33392764 TTAAGCTATAATGATATCAAAAACAT-AAATTTACCAAAAATGGACATCAAATTCGCTTACATGC
131 TTAAGCTACAACGATATCAAAAACATCAAATTTACCAAAAATGGACATCAAATTCACTTACATCC
** * * * * * * * * **
33392828 TTGATACATGCTTGGCCGAATTTCTCAGGGTCTTCCAATGGTGATTCTCTATCCAAGATTGTGAA
196 AAGACAAATACTTGGCCAAATTTCTCAAGGTCTACCAATGGTGATTCTCGATCAAAGAGGGTGAA
*
33392893 ATGAAGAAGATGGGTGTTTT-TCTTCTTTTGTTTATGTTTTTTATTTATTTAATTACTAATTTTC
261 AT--A-AAGATGGGTGTTTTGT-TTCTTTTGTTTA----TCTTATTTATTTAATTACTAATTTTC
* * *
33392957 CCTTTAAAATATTTCATAATTTCCAATTAGAACATGTGTAAACCAT
318 CCTTCAAAATATTTCATAATTTCCAATCAAAACATGTGTAAACCAT
33393003 CCACCAACAT
Statistics
Matches: 316, Mismatches: 43, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
376 87 0.28
377 35 0.11
378 2 0.01
379 25 0.08
381 1 0.00
382 35 0.11
383 131 0.41
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (378 bp):
TCACTTTACAAAATAATCCTATTCCAACATCAAGCTTCAAACATCAACACTAACATCCAAAAAGC
TTTAAAAACAACAATGGTAACTTTCAAAATCTTTGACAGTTTTACGACAACTTAGATTAGCTAGA
TTAAGCTACAACGATATCAAAAACATCAAATTTACCAAAAATGGACATCAAATTCACTTACATCC
AAGACAAATACTTGGCCAAATTTCTCAAGGTCTACCAATGGTGATTCTCGATCAAAGAGGGTGAA
ATAAAGATGGGTGTTTTGTTTCTTTTGTTTATCTTATTTATTTAATTACTAATTTTCCCTTCAAA
ATATTTCATAATTTCCAATCAAAACATGTGTAAACCATTAACAAAATATTTAA
Found at i:33407104 original size:29 final size:28
Alignment explanation
Indices: 33407068--33407140 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 28
33407058 TCATGAGATT
*
33407068 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
33407098 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
33407125 TGGCACTAAGTGTGCG
1 -GGCACTAAGTGTGCG
33407141 CGATTGATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:33407409 original size:173 final size:174
Alignment explanation
Indices: 33407098--33407424 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
33407088 AAATTGTACA
* *
33407098 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGATTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGATTGATTACTAAACACTATG
* *
33407163 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
33407228 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* ** * * *
33407272 GCACTAAGTGTGTGAGTTTAAAGTGTATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGATTGATTACTAAACACTATG
33407337 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
33407401 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
33407425 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 81 0.57
174 62 0.43
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGATTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:33408884 original size:17 final size:17
Alignment explanation
Indices: 33408841--33408886 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
33408831 GGGTGTTACA
33408841 CACAATCTATAGTTTTC
1 CACAATCTATAGTTTTC
* *
33408858 TA-AGTCTATAGTTTTC
1 CACAATCTATAGTTTTC
33408874 CACAATCTATAGT
1 CACAATCTATAGT
33408887 AACTAGACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (17 bp):
CACAATCTATAGTTTTC
Found at i:33410095 original size:29 final size:29
Alignment explanation
Indices: 33410032--33410099 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
33410022 TAATCAACCA
33410032 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
33410061 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
33410090 CGCACACTTA
1 CGCACACTTA
33410100 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:33410240 original size:29 final size:30
Alignment explanation
Indices: 33410201--33410279 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
33410191 CTTAATAATC
33410201 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
33410231 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
33410260 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33410280 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:33421743 original size:21 final size:20
Alignment explanation
Indices: 33421708--33421756 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
33421698 TTCTAACTTG
* *
33421708 TTTGAAAATGGTTAATACATA
1 TTTGAAACTGGTTAACACA-A
*
33421729 TTTGAAACTGTTTAACACAA
1 TTTGAAACTGGTTAACACAA
33421749 -TTGAAACT
1 TTTGAAACT
33421757 TTTTCAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
20 1 0.04
21 16 0.64
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (20 bp):
TTTGAAACTGGTTAACACAA
Found at i:33427315 original size:40 final size:40
Alignment explanation
Indices: 33427260--33427510 Score: 340
Period size: 40 Copynumber: 6.3 Consensus size: 40
33427250 AATTATACTT
*
33427260 TGTTTGTACTTTGGTACCTCTGATTGCACATACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* *
33427300 TGTTTCTACTTTGGTACCCCTGATTGCACTTACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* * *
33427340 TGTTTGTACTTTGGTACCCTTGAATACACATACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* * *
33427380 TTTTTGTACTTTGATACCCCTGGTTGCACATACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* *
33427420 TGTTTGTGCTTTTGTACCCCTGATTGCACATACGTGCCCC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
* * ** * *
33427460 CGTTTGTTCTTCAGTACCCCTGATTGCACATACGTTCACC
1 TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
*
33427500 TGTTTATACTT
1 TGTTTGTACTT
33427511 CAGTAATTTC
Statistics
Matches: 183, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.38
Consensus pattern (40 bp):
TGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
Found at i:33427321 original size:20 final size:20
Alignment explanation
Indices: 33427296--33427358 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
33427286 CACATACGTG
33427296 CCCCTGTTTCTACTTTGGTA
1 CCCCTGTTTCTACTTTGGTA
* ** *
33427316 CCCCTGATTGC-ACTTACGTG
1 CCCCTG-TTTCTACTTTGGTA
*
33427336 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTCTACTTTGGTA
33427356 CCC
1 CCC
33427359 TTGAATACAC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.84
21 3 0.09
ACGTcount: A:0.11, C:0.33, G:0.17, T:0.38
Consensus pattern (20 bp):
CCCCTGTTTCTACTTTGGTA
Found at i:33427419 original size:20 final size:20
Alignment explanation
Indices: 33427396--33427459 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
33427386 TACTTTGATA
*
33427396 CCCCTGGTTGCACATACGTG
1 CCCCTGATTGCACATACGTG
* ** * ** *
33427416 CCCCTGTTTGTGCTTTTGTA
1 CCCCTGATTGCACATACGTG
33427436 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCACATACGTG
33427456 CCCC
1 CCCC
33427460 CGTTTGTTCT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.36, G:0.20, T:0.31
Consensus pattern (20 bp):
CCCCTGATTGCACATACGTG
Found at i:33434017 original size:40 final size:40
Alignment explanation
Indices: 33433957--33434171 Score: 218
Period size: 40 Copynumber: 5.4 Consensus size: 40
33433947 GTAAATTATA
* * *
33433957 CCCTTTTTGTACTTCTATACCCCTGATTACACATACGTGC
1 CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* * * * *
33433997 CCCTGTTTGTACTTCGATACCCCTAATTGCACTTTCTTGT
1 CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* *
33434037 GCCTGTCTGTACTTCGATACCCCTGATTGCACATACGTGC
1 CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* * * *** *
33434077 CCCTATTTTTATTTTTCTACCCCTG-CTGCACATACGTG-
1 CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* *
33434115 CCCTCGTTTGTACTTCGGTATCCCTGATTGCACATACGTGC
1 CCCT-GTTTGTACTTCGATACCCCTGATTGCACATACGTGC
* *
33434156 CCTTGTTTATACTTCG
1 CCCTGTTTGTACTTCG
33434172 GTAATTCAAA
Statistics
Matches: 138, Mismatches: 34, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
38 4 0.03
39 26 0.19
40 105 0.76
41 3 0.02
ACGTcount: A:0.16, C:0.31, G:0.14, T:0.38
Consensus pattern (40 bp):
CCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGC
Found at i:33434098 original size:80 final size:79
Alignment explanation
Indices: 33433964--33434171 Score: 213
Period size: 79 Copynumber: 2.6 Consensus size: 79
33433954 ATACCCTTTT
* * * *
33433964 TGTACTTCTATACCCCTGATTACACATACGTGCCCCTGTTTGTACTTCGATACCCCTAATTGCAC
1 TGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCT-ACTGCAC
* *
33434029 TTTCTTGTG-CCT-GTC
65 ATAC--GTGCCCTCGTC
* * *** *
33434044 TGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTTTATTTTTCTACCCCTGCTGCACA
1 TGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTACTGCACA
*
33434109 TACGTGCCCTCGTT
66 TACGTGCCCTCGTC
* * * * *
33434123 TGTACTTCGGTATCCCTGATTGCACATACGTGCCCTTGTTTATACTTCG
1 TGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCG
33434172 GTAATTCAAA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
77 3 0.03
78 3 0.03
79 50 0.48
80 49 0.47
ACGTcount: A:0.17, C:0.31, G:0.15, T:0.38
Consensus pattern (79 bp):
TGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTACTGCACA
TACGTGCCCTCGTC
Found at i:33434584 original size:13 final size:13
Alignment explanation
Indices: 33434563--33434593 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
33434553 GTGTGTGACG
*
33434563 CACGACTATACCA
1 CACGGCTATACCA
33434576 CACGGCTATACCA
1 CACGGCTATACCA
33434589 CACGG
1 CACGG
33434594 TCATGTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.39, G:0.16, T:0.13
Consensus pattern (13 bp):
CACGGCTATACCA
Found at i:33441162 original size:28 final size:28
Alignment explanation
Indices: 33441130--33441230 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
33441120 CATAGTTCGT
*
33441130 CACAAAGGTTTATTCCTTT-ATAATTCAC
1 CACAAAGGCTTATT-CTTTCATAATTCAC
* * **
33441158 CACAAAGGCGTATTCTTTCGTAATTTTC
1 CACAAAGGCTTATTCTTTCATAATTCAC
* * * *
33441186 CACAAAGGTTTATTTTTTCATAGTTCGC
1 CACAAAGGCTTATTCTTTCATAATTCAC
33441214 CACAAAGGCTTATTCTT
1 CACAAAGGCTTATTCTT
33441231 CCCTAATGTG
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 4 0.07
28 54 0.93
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (28 bp):
CACAAAGGCTTATTCTTTCATAATTCAC
Found at i:33451644 original size:29 final size:29
Alignment explanation
Indices: 33451612--33451679 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
33451602 GTAAAAGTGA
*
33451612 GCCTTTGTGGTTGTTTTTGTTAAAGGAAT
1 GCCTTTGTGGTTGTTTCTGTTAAAGGAAT
*
33451641 GCCTTTGTGATTGTTTCTGTTAAAGGAAT
1 GCCTTTGTGGTTGTTTCTGTTAAAGGAAT
*
33451670 TCCTTTGTGG
1 GCCTTTGTGG
33451680 AAAATCTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.47
Consensus pattern (29 bp):
GCCTTTGTGGTTGTTTCTGTTAAAGGAAT
Found at i:33451828 original size:29 final size:29
Alignment explanation
Indices: 33451773--33451961 Score: 182
Period size: 29 Copynumber: 6.6 Consensus size: 29
33451763 ATTTTTGTAC
* * * *
33451773 AAGGACGCCTCTGTGGCTATCTTTGTTAA
1 AAGGAAGCCTTTGTGGCGATCTCTGTTAA
* * * * *
33451802 AAAGAAGCCTTTATGGCAATTTCTGTTAC
1 AAGGAAGCCTTTGTGGCGATCTCTGTTAA
* * *
33451831 AAGGAAACCTTTGTGGCGGTCTCTATTAA
1 AAGGAAGCCTTTGTGGCGATCTCTGTTAA
* *
33451860 ACGGAA-CCTTTGTGGTGATCTCTGTTAA
1 AAGGAAGCCTTTGTGGCGATCTCTGTTAA
* * *
33451888 AAGGATGCCTTTGTGGTGATCTCTATTAA
1 AAGGAAGCCTTTGTGGCGATCTCTGTTAA
* *
33451917 AAGGAAGCCTTTGTGGCAATATCTGTTAA
1 AAGGAAGCCTTTGTGGCGATCTCTGTTAA
* *
33451946 AAGGATGCATTTGTGG
1 AAGGAAGCCTTTGTGG
33451962 TTATCTCAAT
Statistics
Matches: 129, Mismatches: 30, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
28 23 0.18
29 106 0.82
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (29 bp):
AAGGAAGCCTTTGTGGCGATCTCTGTTAA
Found at i:33451951 original size:58 final size:58
Alignment explanation
Indices: 33451754--33451977 Score: 229
Period size: 58 Copynumber: 3.9 Consensus size: 58
33451744 AAAAAGTACA
* * * * * * *
33451754 TTTGTGGCAATTTTTG-TACAAGGACGCCTCTGTGGCT-ATCTTTGTTAAAAAGAAGCC
1 TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGG-TGATCTCTATTAAAAGGAAGCC
* * ** * * *
33451811 TTTATGGCAATTTCTGTTACAAGGAAACCTTTGTGGCGGTCTCTATTAAACGGAA-CC
1 TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCC
** *
33451868 TTTGTGGTGATCTCTGTTAAAAGGATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCC
1 TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCC
* * * *
33451926 TTTGTGGCAATATCTGTTAAAAGGATGCATTTGTGGTTATCTCAATTAAAAG
1 TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGGTGATCTCTATTAAAAG
33451978 AATACCTTAT
Statistics
Matches: 137, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
57 61 0.45
58 76 0.55
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (58 bp):
TTTGTGGCAATTTCTGTTAAAAGGATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCC
Found at i:33451974 original size:29 final size:29
Alignment explanation
Indices: 33451838--33451977 Score: 156
Period size: 29 Copynumber: 4.9 Consensus size: 29
33451828 TACAAGGAAA
* * * *
33451838 CCTTTGTGGCGGTCTCTATTAAACGGA-A
1 CCTTTGTGGTGATCTCTATTAAAAGGATG
*
33451866 CCTTTGTGGTGATCTCTGTTAAAAGGATG
1 CCTTTGTGGTGATCTCTATTAAAAGGATG
*
33451895 CCTTTGTGGTGATCTCTATTAAAAGGAAG
1 CCTTTGTGGTGATCTCTATTAAAAGGATG
** * *
33451924 CCTTTGTGGCAATATCTGTTAAAAGGATG
1 CCTTTGTGGTGATCTCTATTAAAAGGATG
* * *
33451953 CATTTGTGGTTATCTCAATTAAAAG
1 CCTTTGTGGTGATCTCTATTAAAAG
33451978 AATACCTTAT
Statistics
Matches: 93, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 23 0.25
29 70 0.75
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (29 bp):
CCTTTGTGGTGATCTCTATTAAAAGGATG
Found at i:33452006 original size:58 final size:58
Alignment explanation
Indices: 33451884--33452004 Score: 140
Period size: 58 Copynumber: 2.1 Consensus size: 58
33451874 GTGATCTCTG
* * * * * *
33451884 TTAAAAGGATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCCTTTGTGGCAATATCTG
1 TTAAAAGGATGCATTTGTGGTGATCTCAATTAAAAGGAAACCTTTATGGCAAAATCTA
*
33451942 TTAAAAGGATGCATTTGTGGTTATCTCAATTAAAA-GAATACC-TTATGG-AAAACTCTA
1 TTAAAAGGATGCATTTGTGGTGATCTCAATTAAAAGGAA-ACCTTTATGGCAAAA-TCTA
33451999 TTAAAA
1 TTAAAA
33452005 AGAATGCCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
56 3 0.06
57 17 0.31
58 34 0.63
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (58 bp):
TTAAAAGGATGCATTTGTGGTGATCTCAATTAAAAGGAAACCTTTATGGCAAAATCTA
Found at i:33458308 original size:12 final size:12
Alignment explanation
Indices: 33458293--33458323 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33458283 TTTAGTTGTA
33458293 AATGGAGTTGAG
1 AATGGAGTTGAG
33458305 AATGGAGTTGAG
1 AATGGAGTTGAG
33458317 AATGGAG
1 AATGGAG
33458324 CATGCTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.42, T:0.23
Consensus pattern (12 bp):
AATGGAGTTGAG
Found at i:33460124 original size:13 final size:13
Alignment explanation
Indices: 33460106--33460132 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33460096 TAATTAATGG
33460106 GTTAAAATTTAAA
1 GTTAAAATTTAAA
33460119 GTTAAAATTTAAA
1 GTTAAAATTTAAA
33460132 G
1 G
33460133 ATGATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:33460240 original size:43 final size:43
Alignment explanation
Indices: 33460185--33460275 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
33460175 AAATTTGGAT
33460185 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
1 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
33460228 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
1 CATAACTTACATAATACATAAATATATATCATATCATAACTTA
33460271 CATAA
1 CATAA
33460276 ATATATATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.34
Consensus pattern (43 bp):
CATAACTTACATAATACATAAATATATATCATATCATAACTTA
Found at i:33460273 original size:27 final size:27
Alignment explanation
Indices: 33460242--33460302 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
33460232 ACTTACATAA
33460242 TACATAAATATATATCATATCATAACT
1 TACATAAATATATATCATATCATAACT
33460269 TACATAAATATATATCATATCATAACT
1 TACATAAATATATATCATATCATAACT
*
33460296 TGCATAA
1 TACATAA
33460303 CTTAATTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.36
Consensus pattern (27 bp):
TACATAAATATATATCATATCATAACT
Found at i:33466475 original size:41 final size:42
Alignment explanation
Indices: 33466343--33466485 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 42
33466333 AAAAACGCCT
* * * *
33466343 CTAAAAGTCATGTTCTTTAACGGCGTTTGTGAGGAAAGCTCCA
1 CTAAAGGTCATGTTCTTTAGCGGCGTTTGT-AGGAAAGCACCG
* * * *
33466386 CTAAAGGTGATGTTCTTTAGCGACGTTTGTGGGGAAAGCGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCGTTTGT-AGGAAAGCACCG
* *
33466429 ATAAAGGTCATGTTC-TT-GCGGCGTTTGTAGGAAAAGCACTG
1 CTAAAGGTCATGTTCTTTAGCGGCGTTTGTAGG-AAAGCACCG
33466470 CTAAAGGTCATGTTCT
1 CTAAAGGTCATGTTCT
33466486 ATAACGGTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
40 2 0.02
41 31 0.37
42 2 0.02
43 49 0.58
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
CTAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAGCACCG
Found at i:33469960 original size:6 final size:6
Alignment explanation
Indices: 33469951--33469988 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
33469941 TTTAGAATGA
33469951 TTTATT TTTATT TTTATT TTTATT TTGTAATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TT-T-ATT TTTATT
33469989 AATTTATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 23 0.77
7 2 0.07
8 5 0.17
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:33472136 original size:17 final size:18
Alignment explanation
Indices: 33472114--33472154 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
33472104 GTTTCTTATT
*
33472114 TTTTCTATCACCTT-TTA
1 TTTTCTATCACCTTCTCA
*
33472131 TTTTCT-TCATCTTCTCA
1 TTTTCTATCACCTTCTCA
33472148 TTTTCTA
1 TTTTCTA
33472155 ACCTAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTCTATCACCTTCTCA
Found at i:33477858 original size:17 final size:19
Alignment explanation
Indices: 33477836--33477875 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33477826 AGGCCAAGTT
33477836 GGGCGTGT-AGG-CCACAC
1 GGGCGTGTGAGGTCCACAC
*
33477853 GGGCGTGTGTGGTCCACAC
1 GGGCGTGTGAGGTCCACAC
33477872 GGGC
1 GGGC
33477876 AAGGCCAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 2 0.10
19 10 0.50
ACGTcount: A:0.12, C:0.28, G:0.45, T:0.15
Consensus pattern (19 bp):
GGGCGTGTGAGGTCCACAC
Found at i:33481860 original size:16 final size:17
Alignment explanation
Indices: 33481839--33481874 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
33481829 CACATCATCC
33481839 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
33481855 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
33481872 CTC
1 CTC
33481875 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:33492713 original size:7 final size:7
Alignment explanation
Indices: 33492699--33492728 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
33492689 ATTTCTCACA
33492699 TCATCCC
1 TCATCCC
*
33492706 TTATCCC
1 TCATCCC
33492713 TCATCCC
1 TCATCCC
33492720 TCATCCC
1 TCATCCC
33492727 TC
1 TC
33492729 TCATCTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.13, C:0.53, G:0.00, T:0.33
Consensus pattern (7 bp):
TCATCCC
Found at i:33493739 original size:185 final size:185
Alignment explanation
Indices: 33493427--33493795 Score: 711
Period size: 185 Copynumber: 2.0 Consensus size: 185
33493417 TTCCAAACTA
33493427 ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAACATGATGCTAATAAATTAA
1 ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAACATGATGCTAATAAATTAA
33493492 GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
66 GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
33493557 CTAAAATATATTTCATTCATATAGTCTACATATTAGGATAATTTACATTTGGGAC
131 CTAAAATATATTTCATTCATATAGTCTACATATTAGGATAATTTACATTTGGGAC
*
33493612 ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAGCATGATGCTAATAAATTAA
1 ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAACATGATGCTAATAAATTAA
33493677 GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
66 GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
* *
33493742 CTAAAATCTATTTCATTCATATAGTCTACATATTAGTATAATTTACATTTGGGA
131 CTAAAATATATTTCATTCATATAGTCTACATATTAGGATAATTTACATTTGGGA
33493796 TCATTGCATC
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 181 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (185 bp):
ATGAAAGATCGAGTTGTCAGGGAATGTTTTTCTGACTATTATTAAACATGATGCTAATAAATTAA
GTTTAATTAAAGTAATTGTCCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTAAATTTTG
CTAAAATATATTTCATTCATATAGTCTACATATTAGGATAATTTACATTTGGGAC
Found at i:33497340 original size:67 final size:65
Alignment explanation
Indices: 33497267--33497459 Score: 186
Period size: 67 Copynumber: 3.0 Consensus size: 65
33497257 ATTTTAATAA
*
33497267 ATTTAATATTAAAATTAATTTAATACTTATCTTAATAGTATTTTATTAATTAATATTAAAGTGAT
1 ATTTAATATTAAAATTAATTTAATATTTATCTTAATAGTATTTTATTAATTAATATTAAAGT-AT
33497332 T
65 T
* * *
33497333 ATCTTAATATT-AAATTAAATTTAATATTTATCTTGTAGATA-AATATT-CTAA-TAAT-TT-AA
1 AT-TTAATATTAAAATT-AATTTAATATTTATC-T-TA-ATAGTATTTTATTAATTAATATTAAA
*
33497392 -TAGT
61 GTATT
* * *
33497396 -TTTAATATTAAATTTAATCTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTA
1 ATTTAATATTAAAATTAATTTAATATTTATCTTAAT-AGTATTTTATTAA-TTAATATTAAAGTA
33497460 ATTAAATTTA
Statistics
Matches: 102, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
58 2 0.02
59 3 0.03
60 4 0.04
61 25 0.25
62 5 0.05
63 6 0.06
64 3 0.03
65 4 0.04
66 11 0.11
67 26 0.25
68 4 0.04
69 6 0.06
70 3 0.03
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (65 bp):
ATTTAATATTAAAATTAATTTAATATTTATCTTAATAGTATTTTATTAATTAATATTAAAGTATT
Found at i:33497365 original size:29 final size:29
Alignment explanation
Indices: 33497331--33497431 Score: 73
Period size: 29 Copynumber: 3.4 Consensus size: 29
33497321 ATTAAAGTGA
33497331 TTATCTTAATATTAAATTAAATTTAATAT
1 TTATCTTAATATTAAATTAAATTTAATAT
* * *
33497360 TTATCTTGTAGATAAATATTCTAATAATTTAATA-
1 TTATCTT-AATATTAA-A-T-T-A-AATTTAATAT
* * *
33497394 GT-T-TTAATATTAAATTTAATCTAATAT
1 TTATCTTAATATTAAATTAAATTTAATAT
33497421 TTATCTTAATA
1 TTATCTTAATA
33497432 AGTATTATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 18
0.65 0.12 0.22
Matches are distributed among these distances:
26 8 0.15
27 1 0.02
28 2 0.04
29 14 0.26
30 6 0.11
31 6 0.11
32 3 0.06
33 2 0.04
34 2 0.04
35 9 0.17
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (29 bp):
TTATCTTAATATTAAATTAAATTTAATAT
Found at i:33497401 original size:61 final size:58
Alignment explanation
Indices: 33497336--33497451 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
33497326 AGTGATTATC
* *
33497336 TTAATATTAAATTAAATTTAATATTTATCTTGTAGATAAATATTCTAATAATTTAATAGTT
1 TTAATATTAAATTAAATCTAATATTTATC-T-TA-ATAAATATTATAATAATTTAATAGTT
* * *
33497397 TTAATATTAAATTTAATCTAATATTTATCTTAATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTAATAAATATTATAATAATTTAATA
33497452 TTAAAGTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 20 0.40
59 2 0.04
60 1 0.02
61 27 0.54
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (58 bp):
TTAATATTAAATTAAATCTAATATTTATCTTAATAAATATTATAATAATTTAATAGTT
Found at i:33497470 original size:58 final size:60
Alignment explanation
Indices: 33497338--33497472 Score: 161
Period size: 58 Copynumber: 2.3 Consensus size: 60
33497328 TGATTATCTT
* * * *
33497338 AATATTAAATTAAATTTAATATTTATCTTGTAGATAAATATTCTAATAATTTAATAGTTTT
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATAATAATTTAATAG-TTA
* *
33497399 AATATTAAATTTAATCTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATA-TTA
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATAATAATTTAATAGTTA
33497455 AAGTAATTAAATTTAATC
1 AA-T-ATTAAATTTAATC
33497473 ATAGTTTTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
56 4 0.06
57 1 0.02
58 33 0.50
59 2 0.03
60 1 0.02
61 25 0.38
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (60 bp):
AATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATAATAATTTAATAGTTA
Found at i:33497490 original size:32 final size:32
Alignment explanation
Indices: 33497449--33497510 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
33497439 TATTAATTTA
33497449 ATATTAAAGTAATTAAATTTAATCATAGTTTT
1 ATATTAAAGTAATTAAATTTAATCATAGTTTT
*
33497481 ATATTAAAGTAATTAAGTTTAATCATAGTT
1 ATATTAAAGTAATTAAATTTAATCATAGTT
33497511 GAACTCTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (32 bp):
ATATTAAAGTAATTAAATTTAATCATAGTTTT
Found at i:33500742 original size:18 final size:19
Alignment explanation
Indices: 33500711--33500746 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
33500701 GGTTATTTAT
33500711 AAAATATAATATTTAATTG
1 AAAATATAATATTTAATTG
33500730 AAAATAT-ATATTTAATT
1 AAAATATAATATTTAATT
33500747 ATATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAAATATAATATTTAATTG
Found at i:33505577 original size:20 final size:21
Alignment explanation
Indices: 33505539--33505577 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
33505529 GTATTAAATT
* *
33505539 TTAATAATAATATATGAAAAC
1 TTAATAATAATACACGAAAAC
33505560 TTAA-AATAATACACGAAA
1 TTAATAATAATACACGAAA
33505578 GAAAACTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (21 bp):
TTAATAATAATACACGAAAAC
Found at i:33506872 original size:25 final size:26
Alignment explanation
Indices: 33506843--33506914 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
33506833 TTTAGGCCAG
33506843 TTGGGCCAGGGT-ATTGGGCTTAG-GT
1 TTGGGCCAGGGTAATTGGG-TTAGAGT
* * *
33506868 TTGGGCTAGGTTAATTGGGTTAGATT
1 TTGGGCCAGGGTAATTGGGTTAGAGT
* *
33506894 TTGGGCTAGGTTAATTGGGTT
1 TTGGGCCAGGGTAATTGGGTT
33506915 TGTAAAAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 14 0.33
26 28 0.67
ACGTcount: A:0.15, C:0.07, G:0.39, T:0.39
Consensus pattern (26 bp):
TTGGGCCAGGGTAATTGGGTTAGAGT
Found at i:33506886 original size:26 final size:26
Alignment explanation
Indices: 33506855--33506914 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
33506845 GGGCCAGGGT
33506855 ATTGGGCTTAG-GTTTGGGCTAGGTTA
1 ATTGGG-TTAGAGTTTGGGCTAGGTTA
*
33506881 ATTGGGTTAGATTTTGGGCTAGGTTA
1 ATTGGGTTAGAGTTTGGGCTAGGTTA
33506907 ATTGGGTT
1 ATTGGGTT
33506915 TGTAAAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.17, C:0.05, G:0.37, T:0.42
Consensus pattern (26 bp):
ATTGGGTTAGAGTTTGGGCTAGGTTA
Found at i:33507363 original size:44 final size:43
Alignment explanation
Indices: 33507266--33507387 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 43
33507256 ACTTGATGCG
* * *
33507266 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGACTTCA
** * * *
33507310 ATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GACTTCA
* *
33507354 ATCTGCTCCACTGCAACCTCAAGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
33507388 TGCTTATTCG
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
43 3 0.05
44 60 0.95
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGACTTCA
Found at i:33507403 original size:44 final size:44
Alignment explanation
Indices: 33507355--33507474 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
33507345 TCGGCTTCAA
* * *
33507355 TCTGCTCCACTGCAACCTCAAGGAGATAAGATTTGCTTAT-TCGG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTG-TTATCTCAG
* ** * *
33507399 TCTGCCCCACTG-TGCCTTCAGGGGGATAAGACTTGTTTTCTCAG
1 TCTGCTCCACTGCAACC-TCAGGGAGATAAGACTTGTTATCTCAG
*
33507443 TCTGCTCCACTGCAACCTTAGGGAGATAAGAC
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGAC
33507475 CTGATGCGAT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
43 5 0.08
44 53 0.88
45 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTTATCTCAG
Found at i:33507902 original size:129 final size:128
Alignment explanation
Indices: 33507556--33507969 Score: 614
Period size: 129 Copynumber: 3.2 Consensus size: 128
33507546 AAGGAGATAG
* *
33507556 GATCTGTAATTTCTCAACCTATTCCACTGCTGACCAGGGATATAGGAGTTGTGGCTTAAATCTGC
1 GATCTGTAATTTCCCAACCTATTCCACTGCTGACCA-GGATATAGGACTTGTGGCTTAAATCTGC
* * *
33507621 TTCCTTACACTTGAAGATAAGATTCGTCGTCTCTGATCTGCTCCGCTATTGTTTAGGGAGACAA
65 TTCCTTACACTTGAAGATAAGATTCGACGTCTTTGATCTGCTCCGCTATTGCTTAGGGAGACAA
**
33507685 GATCCATAATTT-CCAACCTATTCCACTGCTGACCAGTGATATAGGACTTGTGGCTTAAATCTGC
1 GATCTGTAATTTCCCAACCTATTCCACTGCTGACCAG-GATATAGGACTTGTGGCTTAAATCTGC
* *
33507749 TTCCTTACTCTTGAAGATAAGATTCGACGTCTTTGATCTGCTCTGCTATTGCTTAGGGAGACAA
65 TTCCTTACACTTGAAGATAAGATTCGACGTCTTTGATCTGCTCCGCTATTGCTTAGGGAGACAA
** ** ** *
33507813 GATCTGTAATTTCCCAACCTATTCCACTGCTGGTCATGGAGCTAGGTTTTGTGGTTTAAATCTGC
1 GATCTGTAATTTCCCAACCTATTCCACTGCTGACCA-GGATATAGGACTTGTGGCTTAAATCTGC
* * * *
33507878 TTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATATGCTCCGCTACTGCTTAGGGAGACAA
65 TTCCTTACACTTGAAGATAAGATTCGACGTCTTTGATCTGCTCCGCTATTGCTTAGGGAGACAA
33507942 GATCTGTAATTTCCCAACCTATTCCACT
1 GATCTGTAATTTCCCAACCTATTCCACT
33507970 ACAACCGAGG
Statistics
Matches: 258, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
127 1 0.00
128 117 0.45
129 139 0.54
130 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (128 bp):
GATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGATATAGGACTTGTGGCTTAAATCTGCT
TCCTTACACTTGAAGATAAGATTCGACGTCTTTGATCTGCTCCGCTATTGCTTAGGGAGACAA
Found at i:33509261 original size:14 final size:13
Alignment explanation
Indices: 33509242--33509272 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
33509232 TTAGCCTTAC
33509242 TTTTTCATTTTTCA
1 TTTTTCA-TTTTCA
33509256 TTTTTCATTTTCA
1 TTTTTCATTTTCA
33509269 TTTT
1 TTTT
33509273 CACATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:33509274 original size:6 final size:7
Alignment explanation
Indices: 33509242--33509272 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
33509232 TTAGCCTTAC
33509242 TTTTTCA
1 TTTTTCA
33509249 TTTTTCA
1 TTTTTCA
33509256 TTTTTCA
1 TTTTTCA
33509263 -TTTTCA
1 TTTTTCA
33509269 TTTT
1 TTTT
33509273 CACATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:33514309 original size:23 final size:23
Alignment explanation
Indices: 33514279--33514327 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
33514269 ATTGTCACAC
33514279 TCAGTGAGTTAGGATGCAACAAT
1 TCAGTGAGTTAGGATGCAACAAT
33514302 TCAGTGAGTTAGGATGCAACAAT
1 TCAGTGAGTTAGGATGCAACAAT
33514325 TCA
1 TCA
33514328 ATCATCAAAA
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:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (23 bp):
TCAGTGAGTTAGGATGCAACAAT
Found at i:33519783 original size:21 final size:21
Alignment explanation
Indices: 33519757--33519810 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
33519747 AGTAGTGTTG
**
33519757 GCGGTGAGATTATTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
33519778 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
33519799 GCGGTGAGATTA
1 GCGGTGAGATTA
33519811 AAAACAGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.09, G:0.35, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:33520592 original size:113 final size:113
Alignment explanation
Indices: 33520394--33520621 Score: 447
Period size: 113 Copynumber: 2.0 Consensus size: 113
33520384 AGACTATATC
33520394 CCCATACCTATTCCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCCAGGTAGCA
1 CCCATACCTATTCCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCCAGGTAGCA
33520459 TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
66 TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
*
33520507 CCCATACCTATTCCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCTAGGTAGCA
1 CCCATACCTATTCCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCCAGGTAGCA
33520572 TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
66 TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
33520620 CC
1 CC
33520622 ATGATTAAAG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 114 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (113 bp):
CCCATACCTATTCCAAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCCAGGTAGCA
TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
Found at i:33527267 original size:17 final size:17
Alignment explanation
Indices: 33527242--33527280 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
33527232 TACCCCAATG
*
33527242 ATTTCATTTAGTTTTAT
1 ATTTTATTTAGTTTTAT
*
33527259 ATTTTATTTATTTTTAT
1 ATTTTATTTAGTTTTAT
33527276 -TTTTA
1 ATTTTA
33527281 CGTTTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (17 bp):
ATTTTATTTAGTTTTAT
Found at i:33529587 original size:49 final size:50
Alignment explanation
Indices: 33529403--33529588 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 50
33529393 GGTAAAGAGG
* * * * **
33529403 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATAGGAGAAC
** * *
33529453 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATAGGAGAAC
* * * *
33529503 TCCCATGTAAGACCATATCTGGGATATGTCATTGGCAGT-ATAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATAGGAGAAC
* *
33529551 ATCCCATGTAAGACCACGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33529589 TGTTATTATC
Statistics
Matches: 114, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
48 3 0.03
49 37 0.32
50 74 0.65
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGATAGGAGAAC
Found at i:33534399 original size:40 final size:40
Alignment explanation
Indices: 33534315--33534497 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
33534305 TTGAATGCTG
* * * *
33534315 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
33534354 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
33534395 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
33534435 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
33534475 TCCGGGTTAAGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33534498 GAATGAGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 13 0.11
40 99 0.81
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:33534452 original size:80 final size:81
Alignment explanation
Indices: 33534315--33534494 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
33534305 TTGAATGCTG
* * *
33534315 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
33534379 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
33534395 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
33534456 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
33534475 TCCGGGTTAAGT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
33534495 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 12 0.14
80 67 0.76
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:33542330 original size:40 final size:40
Alignment explanation
Indices: 33542246--33542428 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
33542236 TTGAATGCTG
* * * *
33542246 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
33542285 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
33542326 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
33542366 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
33542406 TCCGGGTTAAGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33542429 GAATGAGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 13 0.11
40 99 0.81
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:33542383 original size:80 final size:81
Alignment explanation
Indices: 33542246--33542425 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
33542236 TTGAATGCTG
* * *
33542246 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
33542310 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
33542326 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
33542387 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
33542406 TCCGGGTTAAGT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
33542426 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 12 0.14
80 67 0.76
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:33550320 original size:39 final size:40
Alignment explanation
Indices: 33550200--33550327 Score: 188
Period size: 40 Copynumber: 3.2 Consensus size: 40
33550190 GGACTAAGAT
33550200 CGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCC
* * *
33550240 CGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCC
* * *
33550280 CGAAGGCATTCGTGC-AGTTTTTAAATCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCC
33550319 CG-AGGCATT
1 CGAAGGCATT
33550328 GTATGAGTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 7 0.09
39 22 0.28
40 50 0.63
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCC
Found at i:33565614 original size:16 final size:16
Alignment explanation
Indices: 33565593--33565623 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33565583 GTTTTGTTGC
33565593 TAATTTTACTTTTTCG
1 TAATTTTACTTTTTCG
33565609 TAATTTTACTTTTTC
1 TAATTTTACTTTTTC
33565624 ACTTTCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (16 bp):
TAATTTTACTTTTTCG
Found at i:33565916 original size:51 final size:51
Alignment explanation
Indices: 33565852--33566038 Score: 188
Period size: 51 Copynumber: 3.7 Consensus size: 51
33565842 CCGGTTGACA
* * *
33565852 TAGTAACCTGCACATAGTACTACACATGTGGCCATAACTATCC-GATGCATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGGATGCA-G
* * *
33565903 TAGTCGCCTGCACATAGTACTACACACGTGATCA-AAGCTATCCGGTACGCA-
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAA-CTATCCGG-ATGCAG
* * * *
33565954 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATC-ATCCTGG-TACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCC-GGATGCA-G
*
33566004 TAGTAGCCTCCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
33566039 CACTTTCACT
Statistics
Matches: 112, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
48 2 0.02
49 4 0.04
50 35 0.31
51 66 0.59
52 1 0.01
53 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGGATGCAG
Found at i:33566058 original size:101 final size:102
Alignment explanation
Indices: 33565849--33566037 Score: 256
Period size: 101 Copynumber: 1.9 Consensus size: 102
33565839 ATACCGGTTG
* * * * * * *
33565849 ACATAGTAACCTGCACATAGTACTACACATGTGGCCATAACTATCCGATGCATGTAGTCGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATAACTATCCGATACACGTAGTAGCCTCC
*
33565914 ACATAGTACTACACACGTGATCAAAGCTATCCGGTAC
66 ACATAGTACTACACACGTGACCAAAGCTATCCGGTAC
* * *
33565951 GCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATC-ATCCTGGTACACGTAGTAGCCTC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATAACTATCC-GATACACGTAGTAGCCTC
33566014 CACATAGTACTACACACGTGACCA
65 CACATAGTACTACACACGTGACCA
33566038 TCACTTTCAC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (102 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATAACTATCCGATACACGTAGTAGCCTCC
ACATAGTACTACACACGTGACCAAAGCTATCCGGTAC
Found at i:33571699 original size:16 final size:16
Alignment explanation
Indices: 33571678--33571709 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33571668 GTTCTGTTGC
*
33571678 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
33571694 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
33571710 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:33571989 original size:51 final size:50
Alignment explanation
Indices: 33571934--33572077 Score: 164
Period size: 50 Copynumber: 2.9 Consensus size: 50
33571924 ATACCGGTTG
* * *
33571934 ACATAGTAACCTGAACATAGTACTACACATGTGATCATCACTATCCGGTAC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGAACATCACT-TCCGGTAC
* * * *
33571985 ACATAGTAGCCTGCACATAGTACTACATATGCGACCTATCA-TTCTGGTAC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGAAC-ATCACTTCCGGTAC
* * * *
33572035 ACGTAGTAGCCTCCACATAGTACTTCACACGTGAACATCACTT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGAACATCACTT
33572078 TCACTTTCAC
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
49 4 0.05
50 38 0.49
51 32 0.41
52 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (50 bp):
ACATAGTAGCCTGCACATAGTACTACACATGTGAACATCACTTCCGGTAC
Found at i:33573693 original size:268 final size:268
Alignment explanation
Indices: 33573216--33573755 Score: 1026
Period size: 268 Copynumber: 2.0 Consensus size: 268
33573206 AGTTGTCAGG
*
33573216 AGATGGTCACCTCAAAGAATAGTGGAAGTATTACTTTTATATATTTTCAAGATTTTAATAATGGC
1 AGATGGTCACCTCAAAGAATAGTGGAAGTATTACTTATATATATTTTCAAGATTTTAATAATGGC
*
33573281 TACGATGAACCCAAAATCTTTATGGGCTCGTGTTATTAAAGGGCTCTGCTCTCTAAATTGAAACC
66 TACGATGAACCCAAAATCTTTATGGGCTCGTGTTATTAAAGGGCTCTGCTCTCCAAATTGAAACC
* * *
33573346 TTCTTGAGGTTGAAGGAAAACCTAACATATCTTGGTCTTTGCATAGTTTATACAAAGGGACCAAA
131 TTCTTGAGGTTGAAGGAAAACCTAACAGATCGTGGTCTTTACATAGTTTATACAAAGGGACCAAA
33573411 CTGTTAAAATCAGGAACTAAATGAAGCATATGTAATGGTGTAACATCCTAATTATGCATGATAAA
196 CTGTTAAAATCAGGAACTAAATGAAGCATATGTAATGGTGTAACATCCTAATTATGCATGATAAA
33573476 TAGATTTC
261 TAGATTTC
33573484 AGATGGTCACCTCAAAGAATAGTGGAAGTATTACTTATATATATTTTCAAGATTTTAATAATGGC
1 AGATGGTCACCTCAAAGAATAGTGGAAGTATTACTTATATATATTTTCAAGATTTTAATAATGGC
33573549 TACGATGAACCCAAAATCTTTATGGGCTCGTGTTATTAAAGGGCTCTGCTCTCCAAATTGAAACC
66 TACGATGAACCCAAAATCTTTATGGGCTCGTGTTATTAAAGGGCTCTGCTCTCCAAATTGAAACC
*
33573614 TTCTTGTGGTTGAAGGAAAACCTAACAGATCGTGGTCTTTACATAGTTTATACAAAGGGACCAAA
131 TTCTTGAGGTTGAAGGAAAACCTAACAGATCGTGGTCTTTACATAGTTTATACAAAGGGACCAAA
33573679 CTGTTAAAATCAGGAACTAAATGAAGCATATGTAATGGTGTAACATCCTAATTATGCATGATAAA
196 CTGTTAAAATCAGGAACTAAATGAAGCATATGTAATGGTGTAACATCCTAATTATGCATGATAAA
33573744 TAGATTTC
261 TAGATTTC
33573752 AGAT
1 AGAT
33573756 TTTTAGGATG
Statistics
Matches: 266, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
268 266 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (268 bp):
AGATGGTCACCTCAAAGAATAGTGGAAGTATTACTTATATATATTTTCAAGATTTTAATAATGGC
TACGATGAACCCAAAATCTTTATGGGCTCGTGTTATTAAAGGGCTCTGCTCTCCAAATTGAAACC
TTCTTGAGGTTGAAGGAAAACCTAACAGATCGTGGTCTTTACATAGTTTATACAAAGGGACCAAA
CTGTTAAAATCAGGAACTAAATGAAGCATATGTAATGGTGTAACATCCTAATTATGCATGATAAA
TAGATTTC
Found at i:33577102 original size:23 final size:22
Alignment explanation
Indices: 33577051--33577102 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33577041 CCTCGTCTTT
*
33577051 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33577073 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33577096 TTCTTTT
1 TTCTTTT
33577103 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Done.