Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014691.1 Kokia drynarioides strain JFW-HI SEQ_129730, whole genome shotgun sequence
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: 192550
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 44 characters in sequence are not A, C, G, or T
Found at i:51 original size:2 final size:2
Alignment explanation
Indices: 39--69 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
29 TTGAGCCTAA
39 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70 TACTAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1603 original size:16 final size:17
Alignment explanation
Indices: 1565--1596 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1555 AATAAATAAA
1565 AAATATATAAAATTATT
1 AAATATATAAAATTATT
1582 AAATAT-TAAAATTAT
1 AAATATATAAAATTAT
1597 ATAATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAAAATTATT
Found at i:1934 original size:2 final size:2
Alignment explanation
Indices: 1922--1955 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
1912 GCTCGACGAA
*
1922 AT AT GAT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1956 AACCAAGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5666 original size:58 final size:58
Alignment explanation
Indices: 5596--5712 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
5586 ACCAATTAAG
5596 TCCAAAAAGAATTTAGACACCTATTATACAAAGTGATCGACACAAAGTATATATTATT
1 TCCAAAAAGAATTTAGACACCTATTATACAAAGTGATCGACACAAAGTATATATTATT
* *
5654 TCCAAAAAGAATTTAGACACCTGTTATACAAAGTGATCGAGACAAAGTATATATTATT
1 TCCAAAAAGAATTTAGACACCTATTATACAAAGTGATCGACACAAAGTATATATTATT
5712 T
1 T
5713 TATATTTTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.30
Consensus pattern (58 bp):
TCCAAAAAGAATTTAGACACCTATTATACAAAGTGATCGACACAAAGTATATATTATT
Found at i:7135 original size:29 final size:28
Alignment explanation
Indices: 7103--7166 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
7093 TGATTTTGGG
7103 ATTTATTTTAAATGTTTAAGT-TTGTTTTA
1 ATTTATTTTAAAT-TTTAAGTATT-TTTTA
* *
7132 ATTTATTTTTTAATTTTATGTATTTTTTA
1 ATTTA-TTTTAAATTTTAAGTATTTTTTA
7161 ATTTAT
1 ATTTAT
7167 ATAATATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 1 0.03
29 21 0.68
30 9 0.29
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (28 bp):
ATTTATTTTAAATTTTAAGTATTTTTTA
Found at i:7742 original size:30 final size:30
Alignment explanation
Indices: 7708--7784 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
7698 AGTCCAAAAC
7708 TTTTAAATAATATTTTTTATACCCCTACTT
1 TTTTAAATAATATTTTTTATACCCCTACTT
*
7738 TTTT-AATAATATATTTTTGTACCCCTACTT
1 TTTTAAATAATAT-TTTTTATACCCCTACTT
7768 TTTTAAATAATATTTTT
1 TTTTAAATAATATTTTT
7785 AAGGCTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 8 0.18
30 28 0.64
31 8 0.18
ACGTcount: A:0.30, C:0.13, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTTAAATAATATTTTTTATACCCCTACTT
Found at i:11631 original size:21 final size:22
Alignment explanation
Indices: 11607--11657 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
11597 GTGGTAGTGA
*
11607 TAAAATTAATTTAT-GTAACAG
1 TAAAATTAATATATAGTAACAG
11628 TAAAATT-ATATATAGTAACAG
1 TAAAATTAATATATAGTAACAG
11649 TAAAATTAA
1 TAAAATTAA
11658 AAATAGTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 5 0.19
21 21 0.78
22 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
TAAAATTAATATATAGTAACAG
Found at i:11663 original size:21 final size:21
Alignment explanation
Indices: 11621--11664 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11611 ATTAATTTAT
* *
11621 GTAACAGTAAAATTATATATA
1 GTAACAGTAAAATTAAAAATA
11642 GTAACAGTAAAATTAAAAATA
1 GTAACAGTAAAATTAAAAATA
11663 GT
1 GT
11665 GATGAGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (21 bp):
GTAACAGTAAAATTAAAAATA
Found at i:11805 original size:24 final size:24
Alignment explanation
Indices: 11751--11805 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
11741 ATTAAATTAA
11751 ATAAAATAAATAATTATATTTTGT
1 ATAAAATAAATAATTATATTTTGT
* *
11775 ATTAAAT-AATATATTA-ATTTATTT
1 ATAAAATAAATA-ATTATATTT-TGT
11799 ATAAAAT
1 ATAAAAT
11806 TGTGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATAAAATAAATAATTATATTTTGT
Found at i:18617 original size:13 final size:14
Alignment explanation
Indices: 18589--18622 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
18579 CCACATAGAT
18589 ACAAAAAACACTATA
1 ACAAAAAACAC-ATA
18604 ACAAAAAACA-ATA
1 ACAAAAAACACATA
18617 ACAAAA
1 ACAAAA
18623 GCAAAAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
15 10 0.53
ACGTcount: A:0.74, C:0.18, G:0.00, T:0.09
Consensus pattern (14 bp):
ACAAAAAACACATA
Found at i:22921 original size:366 final size:365
Alignment explanation
Indices: 22193--23665 Score: 2295
Period size: 366 Copynumber: 4.0 Consensus size: 365
22183 AGCTCTAACA
* * *
22193 GTTGCAATTTCATGTTCAACTCGAGGAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCACATC
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCGCATC
****
22258 AGAACTAACAACAGAAAGACAATCTGTGCTTCTCTTTGAATTAACCGGCTCCTGTGCACCAAAA-
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCGGCTCCTGTGCA-CAAAAG
* *
22322 TTGGCAACAACAGCGCTAGCACTGCTGCTACTGCCCCACCGTTT-TCTCCTTCTACGGTAAACTA
130 TTGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCT-TCC-TC--CTGTAAACTA
* * * *
22386 AAATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTCGAGTAAG
191 AAATCGGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCACTTT-GGGTAAG
** * * *
22451 GGAAGGCATGAATCCTCAGCCTCTTTACATCCGGTTCGTGATGTACCATCGCATTTAGGAGTCAT
255 GGAAGGCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCAT
22516 CTGGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
320 CTGGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* *
22562 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAGGCGCATC
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCGCATC
* *
22627 AGAACTAACAACAGAAAGACAATCCGCACTTCTCTTTGAATTAACCGGCTCCTGTGTACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCGGCTCCTGTGCACAAAAGT
* *
22692 TGGCAACAACAGCGCTAGCACTGCTGCTGCTG-CCCATCTGTTTCTTCCTCCTGTAAATTAAAAT
131 TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCA-CCGTTTCTTCCTCCTGTAAACTAAAAT
* * *
22756 CGGCACAGGACTTTCAAACATCACACTTACAGATGACTGCTGAGAACCAACTTTGGGTAAGGAAA
195 CGGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACC-ACTTTGGGTAAGGGAA
*
22821 GGCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTTG
259 GGCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGG
*
22886 CAAGTTCCATTACCAGACATCCAATCACATAAAGAAATCTTT
324 CAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* *
22928 GTTGCAGTTCCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGTGCATC
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCGCATC
* ** *
22993 AGAACTAACAACAGAAAGGCAATCCATGCTTCTCTTTGAATTAACCGGCTCCTGTGCATAAAAGT
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCGGCTCCTGTGCACAAAAGT
* * * *
23058 TGGCAACAACAGAGCTGGCACTGCTGCTGCTGCCCCACCGTTTCTTCCCCCTGCTGTAAACTGAA
131 TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTT---CCTCCTGTAAACTAAA
* * *
23123 ATTGGCATAGGACTTTCAAACATCACACTCACAGATGGCTGCTGAGAACCAGTTGTGGGTAAGGG
193 ATCGGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCACTT-TGGGTAAGGG
23188 AAGGCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCT
257 AAGGCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCT
*
23253 GGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAGTCTTT
322 GGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
*
23297 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCGCATG
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCGCATC
*
23362 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCGGCTCCTGTGCACAAAAGT
* * *
23427 TGGCAACAACAGCACTAGCACTGCTGCTGCAGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATT
131 TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
* * * *
23492 GGCATAGGACTTTCAAACATCATATTCACAGATGACTGTTGAGTACCAGCTTTGGGTAAGGGAAG
196 GGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCA-CTTTGGGTAAGGGAAG
* ** *
23557 GCGTGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATTGCATTTAGGAGTCATCTGCC
260 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGGC
*
23622 AAGTTTCATTACTAGACATCCAATCACATAAAGAAATCTTT
325 AAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
23663 GTT
1 GTT
23666 TCCTGCATTC
Statistics
Matches: 1016, Mismatches: 78, Indels: 23
0.91 0.07 0.02
Matches are distributed among these distances:
366 499 0.49
367 10 0.01
368 14 0.01
369 492 0.48
370 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (365 bp):
GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCGCATC
AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCGGCTCCTGTGCACAAAAGT
TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
GGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCACTTTGGGTAAGGGAAGG
CATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGGCA
AGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
Found at i:23613 original size:735 final size:735
Alignment explanation
Indices: 22193--23665 Score: 2400
Period size: 735 Copynumber: 2.0 Consensus size: 735
22183 AGCTCTAACA
* *
22193 GTTGCAATTTCATGTTCAACTCGAGGAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCACATC
1 GTTGCAATTCCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCACATC
**
22258 AGAACTAACAACAGAAAGACAATCTGTGCTTCTCTTTGAATTAACCGGCTCCTGTGCACCAAAAT
66 AGAACTAACAACAGAAAGACAATCCATGCTTCTCTTTGAATTAACCGGCTCCTGTGCACCAAAAT
* **
22323 TGGCAACAACAGCGCTAGCACTGCTGCTACTGCCCCACCGTTTTCTCCTTCTACGGTAAACTAAA
131 TGGCAACAACAGAGCTAGCACTGCTGCTACTGCCCCACCGTTTTCTCCCCCTACGGTAAACTAAA
22388 ATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTCGAGTAAGGG
196 ATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTCGAGTAAGGG
** * *
22453 AAGGCATGAATCCTCAGCCTCTTTACATCCGGTTCGTGATGTACCATCGCATTTAGGAGTCATCT
261 AAGGCATGAATCCTCAGCCTCTTTACATCCACTTCGTGAAGTACCATCACATTTAGGAGTCATCT
22518 GGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTGTTGCAGTTTCATGTTCAACT
326 GGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTGTTGCAGTTTCATGTTCAACT
*
22583 CGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAGGCGCATCAGAACTAACAACAGAAAGACA
391 CGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACAACAGAAAGACA
* * * *
22648 ATCCGCACTTCTCTTTGAATTAACCGGCTCCTGTGTACAAAAGTTGGCAACAACAGCGCTAGCAC
456 ATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGCAC
* * *
22713 TGCTGCTGCTGCCCATCTGTTTCTTCCTCCTGTAAATTAAAATCGGCACAGGACTTTCAAACATC
521 TGCTGCTGCAGCCCATCCGTTTCTTCCTCCTGTAAACTAAAATCGGCACAGGACTTTCAAACATC
22778 ACACTTACAGATGACTGCTGAGAACCAACTTTGGGTAAGGAAAGGCATGAATCCTCAGCCTCTTT
586 ACACTTACAGATGACTGCTGAGAACCAACTTTGGGTAAGGAAAGGCATGAATCCTCAGCCTCTTT
22843 ACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTTG-CAAGTTCCATTACCAGACATC
651 ACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATC-TGCCAAGTTCCATTACCAGACATC
22907 CAATCACATAAAGAAATCTTT
715 CAATCACATAAAGAAATCTTT
* **
22928 GTTGCAGTTCCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGTGCATC
1 GTTGCAATTCCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCACATC
* *
22993 AGAACTAACAACAGAAAGGCAATCCATGCTTCTCTTTGAATTAACCGGCTCCTGTGCA-TAAAAG
66 AGAACTAACAACAGAAAGACAATCCATGCTTCTCTTTGAATTAACCGGCTCCTGTGCACCAAAA-
* * * * *
23057 TTGGCAACAACAGAGCTGGCACTGCTGCTGCTGCCCCACCG-TTTCTTCCCCCTGCTGTAAACTG
130 TTGGCAACAACAGAGCTAGCACTGCTGCTACTGCCCCACCGTTTTC-TCCCCCTACGGTAAACTA
* ** * *
23121 AAATTGGCATAGGACTTTCAAACATCACACTCACAGATGGCTGCTGAGAACCAGTTGT-GGGTAA
194 AAATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTT-TCGAGTAA
*
23185 GGGAAGGCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCA
258 GGGAAGGCATGAATCCTCAGCCTCTTTACATCCACTTCGTGAAGTACCATCACATTTAGGAGTCA
*
23250 TCTGGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAGTCTTTGTTGCAGTTTCATGTTCA
323 TCTGGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTGTTGCAGTTTCATGTTCA
* *
23315 ACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCGCATGAGAACTAACAACAGAAAG
388 ACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACAACAGAAAG
23380 ACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAG
453 ACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAG
* *
23445 CACTGCTGCTGCAGCCCCA-CCGTTTCTTCCTCCTGTAAACTAAAATTGGCATAGGACTTTCAAA
518 CACTGCTGCTGCAG-CCCATCCGTTTCTTCCTCCTGTAAACTAAAATCGGCACAGGACTTTCAAA
* * * * * *
23509 CATCATA-TTCACAGATGACTGTTGAGTACCAGCTTTGGGTAAGGGAAGGCGTGAATCCTCAGCC
582 CATCACACTT-ACAGATGACTGCTGAGAACCAACTTTGGGTAAGGAAAGGCATGAATCCTCAGCC
** * *
23573 TCTTTACATCCACTTTGTGAAGTACCATTGCATTTAGGAGTCATCTGCCAAGTTTCATTACTAGA
646 TCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCCAAGTTCCATTACCAGA
23638 CATCCAATCACATAAAGAAATCTTT
711 CATCCAATCACATAAAGAAATCTTT
23663 GTT
1 GTT
23666 TCCTGCATTC
Statistics
Matches: 682, Mismatches: 50, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
734 12 0.02
735 665 0.98
736 5 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (735 bp):
GTTGCAATTCCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGCACATC
AGAACTAACAACAGAAAGACAATCCATGCTTCTCTTTGAATTAACCGGCTCCTGTGCACCAAAAT
TGGCAACAACAGAGCTAGCACTGCTGCTACTGCCCCACCGTTTTCTCCCCCTACGGTAAACTAAA
ATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTCGAGTAAGGG
AAGGCATGAATCCTCAGCCTCTTTACATCCACTTCGTGAAGTACCATCACATTTAGGAGTCATCT
GGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTGTTGCAGTTTCATGTTCAACT
CGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACAACAGAAAGACA
ATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGCAC
TGCTGCTGCAGCCCATCCGTTTCTTCCTCCTGTAAACTAAAATCGGCACAGGACTTTCAAACATC
ACACTTACAGATGACTGCTGAGAACCAACTTTGGGTAAGGAAAGGCATGAATCCTCAGCCTCTTT
ACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCCAAGTTCCATTACCAGACATCC
AATCACATAAAGAAATCTTT
Found at i:24092 original size:127 final size:127
Alignment explanation
Indices: 23653--24157 Score: 872
Period size: 126 Copynumber: 4.0 Consensus size: 127
23643 AATCACATAA
*
23653 AGAAATCTTTGTTTCCTGCATTCAAACACAAAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
* * * * *
23718 AAGTCCCAATCTAAATCTCACCTAAAATAGTTCGAGAAACACAAAATCA-GGTCTCTCTCTT
66 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
23779 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
*
23844 AAGTCCCAATCTAAATCTCACCTAATATAATTCAAGAAACACAAAATCAGGG-TTCTCTCTT
66 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
* *
23905 AGAAATCTTCGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAATTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
* *
23970 AAGTCCCAATCTAAATCTCTCCTAATATAATTCAACAAACACAAAATCAGGGTTTTTCTCTT
66 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
24032 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACT-TTGTCAATTGAACTAGAAATTT
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTT-TCAATTGAACTAGAAATTT
*
24096 GAAGTCCCAATCTAAATCTCACCTATTATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
65 GAAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
24158 AACTTCCACC
Statistics
Matches: 361, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
126 233 0.65
127 128 0.35
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (127 bp):
AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
Found at i:24128 original size:253 final size:253
Alignment explanation
Indices: 23653--24157 Score: 870
Period size: 253 Copynumber: 2.0 Consensus size: 253
23643 AATCACATAA
*
23653 AGAAATCTTTGTTTCCTGCATTCAAACACAAAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTCGTTTCCTGCATTCAAACACAAAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
* * *
23718 AAGTCCCAATCTAAATCTCACCTAAAATAGTTCGAGAAACACAAAATCAGGTCTCTCTCTTAGAA
66 AAGTCCCAATCTAAATCTCACCTAAAATAATTCAACAAACACAAAATCAGGTCTCTCTCTTAGAA
23783 ATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTGAAGT
131 ATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTGAAGT
*
23848 CCCAATCTAAATCTCACCTAATATAATTCAAGAAACACAAAATCAGGG-TTCTCTCTT
196 CCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
* *
23905 AGAAATCTTCGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAATTAGAAATTTG
1 AGAAATCTTCGTTTCCTGCATTCAAACACAAAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
* * * *
23970 AAGTCCCAATCTAAATCTCTCCTAATATAATTCAACAAACACAAAATCAGGGTTTTTCTCTTAGA
66 AAGTCCCAATCTAAATCTCACCTAAAATAATTCAACAAACACAAAATCA-GGTCTCTCTCTTAGA
24035 AATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACT-TTGTCAATTGAACTAGAAATTTGAA
130 AATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTT-TCAATTGAACTAGAAATTTGAA
*
24099 GTCCCAATCTAAATCTCACCTATTATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
194 GTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
24158 AACTTCCACC
Statistics
Matches: 238, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
252 108 0.45
253 122 0.51
254 8 0.03
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (253 bp):
AGAAATCTTCGTTTCCTGCATTCAAACACAAAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
AAGTCCCAATCTAAATCTCACCTAAAATAATTCAACAAACACAAAATCAGGTCTCTCTCTTAGAA
ATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTGAAGT
CCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
Found at i:24618 original size:6 final size:6
Alignment explanation
Indices: 24607--24637 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
24597 ACGGTGAAGC
24607 GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT G
1 GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT G
24638 AATAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (6 bp):
GGGTTT
Found at i:27741 original size:34 final size:34
Alignment explanation
Indices: 27703--27770 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
27693 ATTCTAAAAA
27703 TTCTAAAAACTCAAATATTTATAACTTCTATTTG
1 TTCTAAAAACTCAAATATTTATAACTTCTATTTG
27737 TTCTAAAAACTCAAATATTTATAACTTCTATTTG
1 TTCTAAAAACTCAAATATTTATAACTTCTATTTG
27771 CTTTTTCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (34 bp):
TTCTAAAAACTCAAATATTTATAACTTCTATTTG
Found at i:43710 original size:29 final size:30
Alignment explanation
Indices: 43678--43761 Score: 125
Period size: 29 Copynumber: 2.8 Consensus size: 30
43668 TTACGATAGT
* *
43678 AAAAATATAATTTCACCATTTGAATCG-CA
1 AAAAATACAATTTCACCATTTGAATCGTAA
*
43707 AAAAATACAATTTCACCAGTTGAATCGTAA
1 AAAAATACAATTTCACCATTTGAATCGTAA
*
43737 AAAAATACAATTTTACCATTTGAAT
1 AAAAATACAATTTCACCATTTGAAT
43762 AACCTATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 25 0.51
30 24 0.49
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (30 bp):
AAAAATACAATTTCACCATTTGAATCGTAA
Found at i:53820 original size:15 final size:15
Alignment explanation
Indices: 53800--53832 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
53790 CCTACATTTG
53800 TAAAGCTTAACTTAA
1 TAAAGCTTAACTTAA
53815 TAAAGCTTAACTTAA
1 TAAAGCTTAACTTAA
53830 TAA
1 TAA
53833 GATGAATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (15 bp):
TAAAGCTTAACTTAA
Found at i:57031 original size:60 final size:59
Alignment explanation
Indices: 56962--57073 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 59
56952 AAAAATTTGC
56962 ATGGCCGACA-CCCTTTTTTAATCT-GATAAAAAA-ATCAAATTTTTTGGTGTTGGTCATGCA
1 ATGGCCGACACCCCTTTTTT-AT-TGGATAAAAAATA-C-AATTTTTTGGTGTTGGTCATGCA
* *
57022 ATGGCCGACACCCCTTTTTTGTTGGATAAAAAATACAATTTTTTTGTGTTGG
1 ATGGCCGACACCCCTTTTTTATTGGATAAAAAATACAATTTTTTGGTGTTGG
57074 CCATCCTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
59 16 0.34
60 21 0.45
61 10 0.21
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (59 bp):
ATGGCCGACACCCCTTTTTTATTGGATAAAAAATACAATTTTTTGGTGTTGGTCATGCA
Found at i:57213 original size:58 final size:61
Alignment explanation
Indices: 57111--57232 Score: 169
Period size: 59 Copynumber: 2.0 Consensus size: 61
57101 AAATTTTTGC
* * * *
57111 ATGGTCGACACCCTCTTTTTTATCAGATAAAAAATTC-AATTTTTTGGTGTTGTTCATACA
1 ATGGTCGACACCCTCTTATTTATCAGATAAAAAAATCAAATTTTTGGGTGTTGGTCATACA
* *
57171 ATGGTCGACACCC-C-TATTTATCTGATAAAAAAATCAAATTTTTGGGTGTTGGTCATGCA
1 ATGGTCGACACCCTCTTATTTATCAGATAAAAAAATCAAATTTTTGGGTGTTGGTCATACA
57230 ATG
1 ATG
57233 ACCGACATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 18 0.33
59 24 0.44
60 13 0.24
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (61 bp):
ATGGTCGACACCCTCTTATTTATCAGATAAAAAAATCAAATTTTTGGGTGTTGGTCATACA
Found at i:57412 original size:59 final size:61
Alignment explanation
Indices: 57291--57438 Score: 178
Period size: 61 Copynumber: 2.5 Consensus size: 61
57281 AAAAATTTGC
* * *
57291 ATGACCAACACAAAAAAATTGAATTTTTTTATCTGATAAAAAAGGGGGTGTCGGCCATTAT
1 ATGACCAACACAAAAAAATTGAATTTTTTTATCAGATAAAAAAGGGGATGTCGGCAATTAT
* * *
57352 ATGACCAACACCCAAAAATTTG-ATTTTTTTATCAGAT-AAATA-GGGATGTCGGCAATTAT
1 ATGACCAACA-CAAAAAAATTGAATTTTTTTATCAGATAAAAAAGGGGATGTCGGCAATTAT
* * *
57411 ATGGCCAATACAAAAAAA-TGTATTTTTT
1 ATGACCAACACAAAAAAATTGAATTTTTT
57439 ATCTAACAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
57 2 0.03
58 13 0.17
59 23 0.31
60 4 0.05
61 24 0.32
62 9 0.12
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (61 bp):
ATGACCAACACAAAAAAATTGAATTTTTTTATCAGATAAAAAAGGGGATGTCGGCAATTAT
Found at i:67457 original size:29 final size:31
Alignment explanation
Indices: 67415--67479 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
67405 TAATAAATGT
* *
67415 AAAATTATACTTT-ATCCTCTTAAAATGATA
1 AAAATTATAATTTAATCCTCTAAAAATGATA
*
67445 AAAATT-TAATTTAATCCTCTAAAAATTATA
1 AAAATTATAATTTAATCCTCTAAAAATGATA
67475 AAAAT
1 AAAAT
67480 ATAGGTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (31 bp):
AAAATTATAATTTAATCCTCTAAAAATGATA
Found at i:69211 original size:3 final size:3
Alignment explanation
Indices: 69203--69255 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
69193 GTGGGGCATA
* *
69203 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AACT -AT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
69248 AAT AAT AA
1 AAT AAT AA
69256 AATGTGAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:71616 original size:29 final size:29
Alignment explanation
Indices: 71582--71639 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
71572 ACAAATTAAA
71582 AAATTCATAAACTTAATTTCAAATTTTAG
1 AAATTCATAAACTTAATTTCAAATTTTAG
71611 AAATTCATAAACTTAATTTCAAATTTTAG
1 AAATTCATAAACTTAATTTCAAATTTTAG
71640 CATATTAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.41
Consensus pattern (29 bp):
AAATTCATAAACTTAATTTCAAATTTTAG
Found at i:74878 original size:24 final size:23
Alignment explanation
Indices: 74818--74881 Score: 60
Period size: 25 Copynumber: 2.8 Consensus size: 23
74808 TAGGAATTTT
*
74818 TTTTA-TTTTCAA-AAACTAAAA
1 TTTTATTTTTCAATAAAATAAAA
* * *
74839 ATTTGTTTCTTAAATATAAATAAAA
1 TTTTATTT-TTCAATA-AAATAAAA
74864 TTTTATTTTTCAATAAAA
1 TTTTATTTTTCAATAAAA
74882 CTTTTTTCTC
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
21 3 0.09
22 2 0.06
23 7 0.22
24 7 0.22
25 13 0.41
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTTATTTTTCAATAAAATAAAA
Found at i:79005 original size:32 final size:32
Alignment explanation
Indices: 78951--79049 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
78941 GAATGAATGA
*
78951 AATATATGAATTTTTTAAGATCTAATTGATGTC
1 AATATATGAA-TTTTTATGATCTAATTGATGTC
* *
78984 AATAATATGAA-TTTTATGATCTAATTAATG-A
1 AAT-ATATGAATTTTTATGATCTAATTGATGTC
* * *
79015 AATATATGAATTTTTATCATATAATTGATATC
1 AATATATGAATTTTTATGATCTAATTGATGTC
79047 AAT
1 AAT
79050 TGCAAGTGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
30 7 0.13
31 18 0.33
32 20 0.36
33 3 0.05
34 7 0.13
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.44
Consensus pattern (32 bp):
AATATATGAATTTTTATGATCTAATTGATGTC
Found at i:80941 original size:28 final size:28
Alignment explanation
Indices: 80905--80967 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
80895 TCTTATTAAA
*
80905 ATTTGATAATCAGTTATATAATATATAT
1 ATTTTATAATCAGTTATATAATATATAT
80933 ATTTTATAATCAGTTATATAATATATAT
1 ATTTTATAATCAGTTATATAATATATAT
80961 ATTTTAT
1 ATTTTAT
80968 CATTGCAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (28 bp):
ATTTTATAATCAGTTATATAATATATAT
Found at i:87359 original size:84 final size:85
Alignment explanation
Indices: 87203--87371 Score: 322
Period size: 84 Copynumber: 2.0 Consensus size: 85
87193 GTGAGAGAGA
*
87203 CCACATACAATTTGATTTATCCAAATGATAATTTGGGGTTTTCTTTCTAACATCCATTTCAGCAC
1 CCACATACAATTTGATTTATCCAAATGATAATTTGGGGTTTTCTTTCTAACATCCACTTCAGCAC
87268 CATTATTTTGCCATTGCAGT
66 CATTATTTTGCCATTGCAGT
87288 CCACATACAATTTGATTTATCCAAATGATAATTT-GGGTTTTCTTTCTAACATCCACTTCAGCAC
1 CCACATACAATTTGATTTATCCAAATGATAATTTGGGGTTTTCTTTCTAACATCCACTTCAGCAC
87352 CATTATTTTGCCATTGCAGT
66 CATTATTTTGCCATTGCAGT
87372 GACTAAAGGA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 49 0.59
85 34 0.41
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (85 bp):
CCACATACAATTTGATTTATCCAAATGATAATTTGGGGTTTTCTTTCTAACATCCACTTCAGCAC
CATTATTTTGCCATTGCAGT
Found at i:89214 original size:618 final size:625
Alignment explanation
Indices: 88017--89269 Score: 2196
Period size: 618 Copynumber: 2.0 Consensus size: 625
88007 GGATAGTTCT
88017 AAGCACTATGTTAAAAAGAAAAAATATAATCAGAATCTATATTAGCTATTAACTCAACCAGTTCA
1 AAGCACTATGTTAAAAAGAAAAAATATAATCAGAATCTATATTAGCTATTAACTCAACCAGTTCA
88082 TAGTCTATCTTGGCCGAACACAAGTTATATTTATTCTAATAGAAACTAGCTAACTATATTTATAG
66 TAGTCTATCTTGGCCGAACACAAGTTATATTTATTCTAATAGAAACTAGCT-A-TATATTTATA-
*
88147 CTGTTTGTTGTATATATACACATATTCCCTTTCCAAAAAAAAAATTGTCTTAAAAAAAGAAATTT
128 -----T-TTGTATATATACACATATTCCCTTTCAAAAAAAAAAATTGTCTTAAAAAAAGAAATTT
*
88212 AAAATTAATATTATTAAGAGAAATAATCACGGGCTTTCAAAGTGTTGGTTTTAATCATAAGATAA
187 AAAATTAATATTATTAAGAGAAATAATCACGGACTTTCAAAGTGTTGGTTTTAATCATAAGATAA
* *
88277 TAGTCATAAACCATCTCCGAACAATTAGTTTTGCCTCAGTCTTTGTACTAGTTGTATTTATGAAA
252 TAGTCATAAACCATCTCCGAACAAATAGTTTTGCCTCAGTCTTTGTACTAGATGTATTTATGAAA
*
88342 TTTAGTCCATCTATTTTTAATTTCATGGATTTACCATTTTAATTGTAAAATTTAAGAGTTAACGT
317 TTTAGTCCATCTATTTTTAATTTCATGGATTTACCATTTTAATTGTAAAATTTAAGAGTTAAAGT
**
88407 ATCATTGGTAATGTTGTTAAGTGATTTTGTTAAATTTATACATGTTTTTTCAATTAAATTTTTTA
382 ATCATTGGTAACATTGTTAAGTGATTTTGTTAAATTTATACATGTTTTTTCAATTAAATTTTTTA
*
88472 TTTTTAGAACACATCGTGGAATATTAAAATGATGTAATATTGATAATTTGAAGATGTAATTATAA
447 TTTTTAGAACACATCATGGAATATTAAAATGATGTAATATTGATAATTTGAAGATGTAATTATAA
*
88537 CATTTTGAAGTTTAGGGATCAAATTAGAATGAAAGTTATAGTTTAGGGACATCTTATGGAATTAA
512 CATTTTGAAGTTTAGGGACCAAATTAGAATGAAAGTTATAGTTTAGGGACATCTTATGGAATTAA
88602 CTCTTCATGGAAAAAGAATAGAG-TACTAAAGTTCAAATGTCTTAACAA
577 CTCTTCATGGAAAAAGAATAGAGTTACTAAAGTTCAAATGTCTTAACAA
* * * * *
88650 AAGCATTATGTTAAAAATAACAGATATAATCAGAATCTATATTAGCTCTTAACTCAACCAGTTCA
1 AAGCACTATGTTAAAAAGAAAAAATATAATCAGAATCTATATTAGCTATTAACTCAACCAGTTCA
* *
88715 TTGTCTATCTTGGCCGAACACAAGTTTTATTTATTCTAATAGAAACTAG-T-TA-A-TTATA-TT
66 TAGTCTATCTTGGCCGAACACAAGTTATATTTATTCTAATAGAAACTAGCTATATATTTATATTT
88775 -TATATATACACATATTCCCTTTCAAAAAAAAAAATTGTCTTAAAAAAAGAAATTTAAAATTAAT
131 GTATATATACACATATTCCCTTTCAAAAAAAAAAATTGTCTTAAAAAAAGAAATTTAAAATTAAT
* *
88839 ATTATTAAGAGAAATAATCACGGATTTTTAAAGTGTTGGTTTTAATCATAAGATAATAGTCATAA
196 ATTATTAAGAGAAATAATCACGGACTTTCAAAGTGTTGGTTTTAATCATAAGATAATAGTCATAA
88904 ACCATCTCCGAACAAATAGTTTTGCCTCAGTCTTTGTACTAGATGTATTTATGAAATTTAGTCCA
261 ACCATCTCCGAACAAATAGTTTTGCCTCAGTCTTTGTACTAGATGTATTTATGAAATTTAGTCCA
*
88969 TCTATTTTTAATTTCTTGGATTTACCATTTTAATTGTAAAATTTAAGAGTTAAAGTATCATTGGT
326 TCTATTTTTAATTTCATGGATTTACCATTTTAATTGTAAAATTTAAGAGTTAAAGTATCATTGGT
89034 AACATTGTTAAGTGATTTTGTTAAATTTATACATGTTTTTTCAATTAAATTTTTTATTTTTAGAA
391 AACATTGTTAAGTGATTTTGTTAAATTTATACATGTTTTTTCAATTAAATTTTTTATTTTTAGAA
89099 CACATCATGGAATATTAAAATGATGTAATATTGATAATTTGAAGATGTAATTATAACATTTTGAA
456 CACATCATGGAATATTAAAATGATGTAATATTGATAATTTGAAGATGTAATTATAACATTTTGAA
89164 GTTTAGGGACCAAATTAGAATGAAAGTTATAGTTTAGGGACATCTTATGGAATTAACTCTTCATG
521 GTTTAGGGACCAAATTAGAATGAAAGTTATAGTTTAGGGACATCTTATGGAATTAACTCTTCATG
*
89229 GAAAAAGAATAGAGTTACTAGAGTTCAAATGTCTTAACAA
586 GAAAAAGAATAGAGTTACTAAAGTTCAAATGTCTTAACAA
89269 A
1 A
89270 TACAGTGATT
Statistics
Matches: 599, Mismatches: 20, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
618 456 0.76
619 27 0.05
627 5 0.01
628 1 0.00
629 2 0.00
632 1 0.00
633 107 0.18
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (625 bp):
AAGCACTATGTTAAAAAGAAAAAATATAATCAGAATCTATATTAGCTATTAACTCAACCAGTTCA
TAGTCTATCTTGGCCGAACACAAGTTATATTTATTCTAATAGAAACTAGCTATATATTTATATTT
GTATATATACACATATTCCCTTTCAAAAAAAAAAATTGTCTTAAAAAAAGAAATTTAAAATTAAT
ATTATTAAGAGAAATAATCACGGACTTTCAAAGTGTTGGTTTTAATCATAAGATAATAGTCATAA
ACCATCTCCGAACAAATAGTTTTGCCTCAGTCTTTGTACTAGATGTATTTATGAAATTTAGTCCA
TCTATTTTTAATTTCATGGATTTACCATTTTAATTGTAAAATTTAAGAGTTAAAGTATCATTGGT
AACATTGTTAAGTGATTTTGTTAAATTTATACATGTTTTTTCAATTAAATTTTTTATTTTTAGAA
CACATCATGGAATATTAAAATGATGTAATATTGATAATTTGAAGATGTAATTATAACATTTTGAA
GTTTAGGGACCAAATTAGAATGAAAGTTATAGTTTAGGGACATCTTATGGAATTAACTCTTCATG
GAAAAAGAATAGAGTTACTAAAGTTCAAATGTCTTAACAA
Found at i:96139 original size:71 final size:71
Alignment explanation
Indices: 96045--96181 Score: 231
Period size: 71 Copynumber: 1.9 Consensus size: 71
96035 TTGAATTTGA
96045 GGTTTAACTTAGTTGATGTTTGTGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAATAA
1 GGTTTAACTTAGTTGATGTTTGTGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAATAA
96110 ATCTTG
66 ATCTTG
* * *
96116 GGTTTAATTTAGTTGAT-TCTTGTGAGTAGGAATGTTGAAACTTAGTGGACCAGAAAAGTAAATA
1 GGTTTAACTTAGTTGATGT-TTGTGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAATA
96180 AA
65 AA
96182 ATGAGTCTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 1 0.02
71 61 0.98
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (71 bp):
GGTTTAACTTAGTTGATGTTTGTGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAATAA
ATCTTG
Found at i:96279 original size:82 final size:82
Alignment explanation
Indices: 96108--96297 Score: 220
Period size: 82 Copynumber: 2.3 Consensus size: 82
96098 AAAAGTAAAT
* * * * * *
96108 AAATCTTGGGTTTAATTTAGTTGATTCTTGTGAGTAGGAATGTTGAAACTTAGTGGACCAGAAAA
1 AAAT-TTGGGTTTAACTTAGTAGATTCTTGTGAATAAGAATATTGAAACTTAG-GGACCAAAAAA
* *
96173 GTAAATAAAATGAGTCTTC
64 GTAAATAAAATAAATCTTC
* * *
96192 GAATTTGAGGTTTAACTTAATAGATTCTTGTGAATAAGAATATTGAAATTTA-GGACCAAAAAAG
1 AAATTTG-GGTTTAACTTAGTAGATTCTTGTGAATAAGAATATTGAAACTTAGGGACCAAAAAAG
* *
96256 TATATAAAATAAATTTTC
65 TAAATAAAATAAATCTTC
96274 AAATTTGGAGTTTAACTTAGTAGA
1 AAATTTGG-GTTTAACTTAGTAGA
96298 ATTTTCAAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
81 1 0.01
82 45 0.51
83 3 0.03
84 40 0.45
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (82 bp):
AAATTTGGGTTTAACTTAGTAGATTCTTGTGAATAAGAATATTGAAACTTAGGGACCAAAAAAGT
AAATAAAATAAATCTTC
Found at i:96567 original size:109 final size:109
Alignment explanation
Indices: 96419--96661 Score: 364
Period size: 109 Copynumber: 2.2 Consensus size: 109
96409 CCACATTCTA
*
96419 TTTATTAATATGATTATTTGAACACACTCGTATTCCAATTTACT-TTAACGCCTTATTTGGGAGG
1 TTTATTAATATGATTATTTGAACACACTAGTATTCCAATTTA-TGTTAACGCCTTATTTGGGAGG
* *
96483 GAAACAAAGTATTGTAGCAATTGTGTCTAGGCTTAGCCCATTTGG
65 GAAACAAAGTATTGTAGCAATTGTGTCTAGGCTTAACCCATTTAG
* ** *
96528 TTTATTAATATGATCATTTGAACACACTAGTATGT-CAATTTATGTTAATTCCTTCTTTGGGAGG
1 TTTATTAATATGATTATTTGAACACACTAGTAT-TCCAATTTATGTTAACGCCTTATTTGGGAGG
* * *
96592 GCAACAAAGTATTGTGGCAATTGTGTCTATGCTTAACCCATTTAG
65 GAAACAAAGTATTGTAGCAATTGTGTCTAGGCTTAACCCATTTAG
96637 TTTATTAATATGATTATTTGAACAC
1 TTTATTAATATGATTATTTGAACAC
96662 CCATCTCAAT
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
108 1 0.01
109 119 0.98
110 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (109 bp):
TTTATTAATATGATTATTTGAACACACTAGTATTCCAATTTATGTTAACGCCTTATTTGGGAGGG
AAACAAAGTATTGTAGCAATTGTGTCTAGGCTTAACCCATTTAG
Found at i:122733 original size:2 final size:2
Alignment explanation
Indices: 122726--122752 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
122716 GCATAAATTA
122726 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
122753 ATCTATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:124836 original size:22 final size:22
Alignment explanation
Indices: 124796--124837 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
124786 GTCAAATAAA
**
124796 TATACTAATAAATGTTAAATAT
1 TATACTAATAAATACTAAATAT
124818 TATACTAATAAATACTAAAT
1 TATACTAATAAATACTAAAT
124838 CTTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (22 bp):
TATACTAATAAATACTAAATAT
Found at i:125984 original size:10 final size:10
Alignment explanation
Indices: 125969--126017 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
125959 AGCTAAACAC
125969 ACTACACCGT
1 ACTACACCGT
125979 ACTACA-C--
1 ACTACACCGT
125986 ACTACACCGT
1 ACTACACCGT
125996 ACTAC-CC--
1 ACTACACCGT
126003 ACTACACCGT
1 ACTACACCGT
126013 ACTAC
1 ACTAC
126018 CCATTCAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 11 0.33
8 3 0.09
9 3 0.09
10 16 0.48
ACGTcount: A:0.33, C:0.43, G:0.06, T:0.18
Consensus pattern (10 bp):
ACTACACCGT
Found at i:126018 original size:17 final size:17
Alignment explanation
Indices: 125968--126020 Score: 97
Period size: 17 Copynumber: 3.1 Consensus size: 17
125958 AAGCTAAACA
*
125968 CACTACACCGTACTACA
1 CACTACACCGTACTACC
125985 CACTACACCGTACTACC
1 CACTACACCGTACTACC
126002 CACTACACCGTACTACC
1 CACTACACCGTACTACC
126019 CA
1 CA
126021 TTCAAGCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.32, C:0.45, G:0.06, T:0.17
Consensus pattern (17 bp):
CACTACACCGTACTACC
Found at i:128810 original size:30 final size:31
Alignment explanation
Indices: 128774--128841 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
128764 CTTGATAGCC
128774 CAGTGACTTAAAT-AAAACTTTTAAACAGTT
1 CAGTGACTTAAATGAAAACTTTTAAACAGTT
* *
128804 CAGTGACTTAAATGAAAACTTTTGAATAGTT
1 CAGTGACTTAAATGAAAACTTTTAAACAGTT
*
128835 CATTGAC
1 CAGTGAC
128842 CATTTTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (31 bp):
CAGTGACTTAAATGAAAACTTTTAAACAGTT
Found at i:129946 original size:96 final size:96
Alignment explanation
Indices: 129761--129953 Score: 227
Period size: 96 Copynumber: 2.0 Consensus size: 96
129751 ATCTTTGGGA
* * *
129761 AAGGGATATTTGATTATCTTGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGCGCAGTATTTC
1 AAGGGATATTCGATTATCTTGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGCACAATATTTC
129826 AGAATCGAAGATAAGGAAACATTGCCTCGATT
66 AGAATCGAAGATAAGG-AACATTGCCTCGATT
*
129858 AAGGG-TATTCGATTAT-TTCGATTTGAGGAGAAA-TTGCACCTAGTAAGTTAAGGCACAA-ATT
1 AAGGGATATTCGATTATCTT-GATTTGAAGA-AAAGTTGCACCTAGTAAGTTAAGGCACAATA-T
* *
129919 TTCGGAACTCGAA-ATAAAAGG-ATATTGCCTCGATT
63 TTCAGAA-TCGAAGAT--AAGGAACATTGCCTCGATT
129954 TTAAAGTTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 13
0.82 0.06 0.13
Matches are distributed among these distances:
95 3 0.04
96 64 0.76
97 13 0.15
98 4 0.05
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (96 bp):
AAGGGATATTCGATTATCTTGATTTGAAGAAAAGTTGCACCTAGTAAGTTAAGGCACAATATTTC
AGAATCGAAGATAAGGAACATTGCCTCGATT
Found at i:130370 original size:29 final size:30
Alignment explanation
Indices: 130299--130439 Score: 157
Period size: 29 Copynumber: 4.8 Consensus size: 30
130289 TCTTCGGACA
130299 TCGGGGGTAAAAATGGTAATTTTTGGAAGT
1 TCGGGGGTAAAAATGGTAATTTTTGGAAGT
** *
130329 TTTGGGGTCAAAAATGG-GATTTTTGGAAGT
1 TCGGGGGT-AAAAATGGTAATTTTTGGAAGT
130359 TCGGGGGT-AAAATGGTAATTTTTGGAAGT
1 TCGGGGGTAAAAATGGTAATTTTTGGAAGT
** * * *
130388 TTTGGGATCAAAAA-GG-GATTTTTTGAAGT
1 TCGGGGGT-AAAAATGGTAATTTTTGGAAGT
130417 TCGGGGGT-AAAATGGTAATTTTT
1 TCGGGGGTAAAAATGGTAATTTTT
130440 AGATAGTTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.04
28 9 0.10
29 39 0.43
30 26 0.29
31 12 0.13
ACGTcount: A:0.28, C:0.04, G:0.32, T:0.36
Consensus pattern (30 bp):
TCGGGGGTAAAAATGGTAATTTTTGGAAGT
Found at i:130434 original size:58 final size:59
Alignment explanation
Indices: 130299--130453 Score: 249
Period size: 59 Copynumber: 2.6 Consensus size: 59
130289 TCTTCGGACA
*
130299 TCGGGGGTAAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGGAAGT
1 TCGGGGGT-AAAATGGTAATTTTTGGAAGTTTTGGGATCAAAAATGGGATTTTTGGAAGT
*
130359 TCGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGATCAAAAA-GGGATTTTTTGAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGATCAAAAATGGGATTTTTGGAAGT
* *
130417 TCGGGGGTAAAATGGTAATTTTTAGATAGTTTAGGGA
1 TCGGGGGTAAAATGGTAATTTTTGGA-AGTTTTGGGA
130454 CCTTCGGGGT
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
58 39 0.43
59 43 0.48
60 8 0.09
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.35
Consensus pattern (59 bp):
TCGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGATCAAAAATGGGATTTTTGGAAGT
Found at i:131471 original size:19 final size:19
Alignment explanation
Indices: 131457--131495 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
131447 TTTTATTTAT
131457 TTAT-TTATTAATTATTAA
1 TTATATTATTAATTATTAA
131475 TTATATTATTAATTACTTAA
1 TTATATTATTAATTA-TTAA
131495 T
1 T
131496 AAACATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATATTATTAATTATTAA
Found at i:132056 original size:22 final size:22
Alignment explanation
Indices: 132028--132079 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
132018 TTACAGGTTC
132028 GGCGGTGGAGGCTTGTAGCAGT
1 GGCGGTGGAGGCTTGTAGCAGT
132050 GGCGGTGGAGGCTTGTAGCAGT
1 GGCGGTGGAGGCTTGTAGCAGT
132072 GGCGGTGG
1 GGCGGTGG
132080 CAATCCCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.12, C:0.13, G:0.54, T:0.21
Consensus pattern (22 bp):
GGCGGTGGAGGCTTGTAGCAGT
Found at i:132481 original size:24 final size:24
Alignment explanation
Indices: 132446--132496 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
132436 AACTTTAACC
132446 AAACAGAATTAACTAT-TATGGACT
1 AAACAGAATTAACT-TCTATGGACT
132470 AAACA-AATTTAACTTCTATGGACT
1 AAACAGAA-TTAACTTCTATGGACT
132494 AAA
1 AAA
132497 AGTGATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (24 bp):
AAACAGAATTAACTTCTATGGACT
Found at i:133064 original size:15 final size:16
Alignment explanation
Indices: 133034--133067 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
133024 AAAATGTAAT
133034 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
133050 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
133065 TTT
1 TTT
133068 TTAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:133323 original size:13 final size:13
Alignment explanation
Indices: 133305--133335 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
133295 TTTAAGATAT
133305 GTATAGAAAAATC
1 GTATAGAAAAATC
133318 GTATAGAAAAATC
1 GTATAGAAAAATC
*
133331 ATATA
1 GTATA
133336 TTTTTAACTA
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:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (13 bp):
GTATAGAAAAATC
Found at i:133411 original size:27 final size:27
Alignment explanation
Indices: 133336--133411 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 27
133326 AAATCATATA
*
133336 TTTTTAACTAACTTTTAATGTTTATATTT
1 TTTTTAACTAACTTTT-AT-CTTATATTT
* * *
133365 TTTTTATC-AA-TTTGATTCTTATTTTT
1 TTTTTAACTAACTTTTA-TCTTATATTT
133391 TTTTTAACTAACTTTTATCTT
1 TTTTTAACTAACTTTTATCTT
133412 CAATCTTTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
26 15 0.39
27 10 0.26
28 6 0.16
29 7 0.18
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTTAACTAACTTTTATCTTATATTT
Found at i:134057 original size:198 final size:196
Alignment explanation
Indices: 133686--134077 Score: 694
Period size: 198 Copynumber: 2.0 Consensus size: 196
133676 GCCAACAACG
* *
133686 TTAAAAACTAACGATTTAGTTATCATTTTCATTAAAAAAAAAAAGCAAATTGACTCTTTTATTTT
1 TTAAAAACTAACGATTTAGTCATCATTTTCATTAAAAAAAAAAAACAAATTGACTCTTTTATTTT
133751 TAAAGATTAAGGGTCAAATTTAGCTAAAAAAAATAAGAGCCAATTTGACAGAAAATATAAATGTT
66 TAAAGATTAAGGGTCAAATTTAGCTAAAAAAAATAAGAGCCAATTTGACAGAAAATATAAATGTT
*
133816 GAGAGCTAAATTTATAATATGCCTTTTATTATCCTTTGCCAACTTTACTTTGACGGAGTGGTATG
131 GAAAGCTAAATTTATAATATGCCTTTTATTATCCTTTGCCAACTTTACTTTGACGGAGTGGTATG
133881 C
196 C
133882 TTAAAAACTAACGATTTAGTCATCATTTTCATTAAAAAAAAAAAACAAATTGACTCTTTTATTTT
1 TTAAAAACTAACGATTTAGTCATCATTTTCATTAAAAAAAAAAAACAAATTGACTCTTTTATTTT
* * * * *
133947 TAAAGATTAAGGGTCAAATTTAGTTAAAAAAAGAATATGAGTCAATTTGACAGAAAATGTAAGTG
66 TAAAGATTAAGGGTCAAATTTAGCT-AAAAAA-AATAAGAGCCAATTTGACAGAAAATATAAATG
134012 TTGAAAGCTAAATTTATAATATGCCTTTTATTATCCTTTGCCAACTTTACTTTGACGGAGTGGTA
129 TTGAAAGCTAAATTTATAATATGCCTTTTATTATCCTTTGCCAACTTTACTTTGACGGAGTGGTA
134077 T
194 T
134078 ACTATTAATT
Statistics
Matches: 186, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
196 87 0.47
197 6 0.03
198 93 0.50
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (196 bp):
TTAAAAACTAACGATTTAGTCATCATTTTCATTAAAAAAAAAAAACAAATTGACTCTTTTATTTT
TAAAGATTAAGGGTCAAATTTAGCTAAAAAAAATAAGAGCCAATTTGACAGAAAATATAAATGTT
GAAAGCTAAATTTATAATATGCCTTTTATTATCCTTTGCCAACTTTACTTTGACGGAGTGGTATG
C
Found at i:141255 original size:58 final size:58
Alignment explanation
Indices: 141177--141317 Score: 158
Period size: 59 Copynumber: 2.4 Consensus size: 58
141167 TTGGTAGTTA
* * ***
141177 AGTTTGGCTTCAATTTTCAATTTGATACTTGAATATATTTTTG-CCAATTTGGTACATG
1 AGTTTGGCTTCAATCTTCAATTTGACACCCAAAT-TATTTTTGCCCAATTTGGTACATG
* *
141235 AGTTTGGCTTCAATCTTCAATTTGGCACCCAAATTCTTTTTGTCCCAATTTGGTACATG
1 AGTTTGGCTTCAATCTTCAATTTGACACCCAAATTATTTTTG-CCCAATTTGGTACATG
* * * *
141294 AGTTTGACTACAATGTTCATTTTG
1 AGTTTGGCTTCAATCTTCAATTTG
141318 GTACCTAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 7 0.10
58 28 0.40
59 35 0.50
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (58 bp):
AGTTTGGCTTCAATCTTCAATTTGACACCCAAATTATTTTTGCCCAATTTGGTACATG
Found at i:142265 original size:18 final size:19
Alignment explanation
Indices: 142242--142278 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
142232 CATTTTTACC
*
142242 TTTAAAATTTTAAA-AAAA
1 TTTAAAAATTTAAATAAAA
142260 TTTAAAAATTTAAATAAAA
1 TTTAAAAATTTAAATAAAA
142279 AATTGTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTAAAAATTTAAATAAAA
Found at i:146157 original size:31 final size:31
Alignment explanation
Indices: 146119--146185 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
146109 TACAGTCTAG
*
146119 TGACTTAAATAAAAACTTTCGAATGAATCAA
1 TGACTTAAATAAAAACTTTCAAATGAATCAA
* *
146150 TGACTTAAATAAAAACTTTCAAATTATTCAA
1 TGACTTAAATAAAAACTTTCAAATGAATCAA
146181 TGACT
1 TGACT
146186 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATGAATCAA
Found at i:151577 original size:15 final size:16
Alignment explanation
Indices: 151557--151599 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
151547 GATATAGAAT
151557 AATTAAAT-TATGTTA
1 AATTAAATATATGTTA
*
151572 AATTAAAGTATTTGTTA
1 AATTAAA-TATATGTTA
151589 ACATTAAATAT
1 A-ATTAAATAT
151600 CTTATTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 1 0.04
17 10 0.42
18 6 0.25
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (16 bp):
AATTAAATATATGTTA
Found at i:151815 original size:29 final size:28
Alignment explanation
Indices: 151739--151815 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
151729 ATTATTGTAT
* * *
151739 TATTCTTAAATTTGAAATTTAATCTTTA
1 TATTTTTAATTTTAAAATTTAATCTTTA
* * *
151767 TATTTTTATTTTTAGGAATTTAATCTTTC
1 TATTTTTAATTTTA-AAATTTAATCTTTA
151796 TATTTTTTAATTTTAAAATT
1 TA-TTTTTAATTTTAAAATT
151816 CGAGTCCAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 10 0.26
29 18 0.46
30 11 0.28
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (28 bp):
TATTTTTAATTTTAAAATTTAATCTTTA
Found at i:152571 original size:31 final size:31
Alignment explanation
Indices: 152533--152601 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
152523 TATCCTAATG
152533 TGTCACTATTAGTTACACGTGACACATCAAC
1 TGTCACTATTAGTTACACGTGACACATCAAC
152564 TGTCACTATTAGTTACACGTGACACATCAAC
1 TGTCACTATTAGTTACACGTGACACATCAAC
152595 TGTCACT
1 TGTCACT
152602 GTTTGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (31 bp):
TGTCACTATTAGTTACACGTGACACATCAAC
Found at i:155418 original size:2 final size:2
Alignment explanation
Indices: 155413--155439 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
155403 ATATACGTGC
155413 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
155440 AACACCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:156459 original size:435 final size:428
Alignment explanation
Indices: 155436--156904 Score: 1997
Period size: 431 Copynumber: 3.4 Consensus size: 428
155426 TATATATATA
* * *
155436 TATAAACACCATATTTACCATCAACAAGAACACCTAACAA--ATGAGTACCATATAGGAGAAGAA
1 TATACACACCATATTTATCATCAACAAGAACACCTAACAATGA-GAGTACCATATGGGAGAAGAA
* *
155499 ACATATATAGGTTGGTACACTATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAA
65 ACATGTATAGGTTGGT-CACCATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAA
* * * * * *
155564 CTGCAGGTCTATTTAGCAATGACTTTTCTCCTAACATATTTACGATCAATATGTATATGTGTATC
129 CTGCAGGCCTATTTAGCAATGACTTTTCTCCTAACATATTTACCACCAACATGTATA--TATATA
* * * * * *
155629 TGTGTTTAGCATGCATGCATTATGTATGTATGTATGTATAGACACCATATTTACTATTAACAAGA
192 TATG--TAG---GTATGC---ATGTATGTATGTA--TACAG--ACCATATTTTCCATCAACAAGA
* *
155694 ACACCTAACAATGAGAGCACCATATGGGAGAAGAAACATGTATAGTTTGGTCACCATTTGAAACA
245 ACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACA
* *
155759 ATGCCTATAAGAAATCAACA-GCATATGCTATCAACCGGAGGCCTATTTTTAGCCATGACTTTTC
310 ATGCCTATAAGAAATCAA-AGGCATATGCTATCAACTGCAGGCCTA--TTTAGCCATGACTTTTC
155823 TCCTAACATATTTACCACCAACATGTATATATATGTAGGTATGC----------GTG
372 TCCTAACATATTTACCACCAACATGTATATATATGTAGGTATGCATGTGTGTGTGTG
* *
155870 TATACACACCATATTTTTCATCAACAAGAACACCTAACAATGAGAATACCATATGGGAGAAGAAA
1 TATACACACCATATTTATCATCAACAAGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAA
* *
155935 CATTTATAGGTTGGTGACCATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACT
66 CATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACT
* * *
156000 GCAGGCCTATTTAGCCATGACTTTTCTCCTAAAATATTTTCCACCAACATGTATATATATATATG
131 GCAGGCCTATTTAGCAATGACTTTTCTCCTAACATATTTACCACCAACATGTATATATATATATG
*
156065 TAGGTATGCATGTATGTATGTATACAGACTATATTTTCCATCAACAAGAACACCTAACAATGAGA
196 TAGGTATGCATGTATGTATGTATACAGACCATATTTTCCATCAACAAGAACACCTAACAATGAGA
* * * * *
156130 GTATCATATAGGAGAAGAAACATGTGTAGGTTGGTCACCATTTGAAACAATGCTTATACGAAATC
261 GTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATC
*
156195 AAAGGCATATGCTATCAACTGCAGGCCTATATAGCCATGACTTTTCTCCTAACATATTTACCACC
326 AAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACC
156260 AACATGTATATATATGTAGGTATGCATGTGTGTGTGTG
391 AACATGTATATATATGTAGGTATGCATGTGTGTGTGTG
*
156298 TATACACACCATATTTATCATTAACAAGAACACCTAACAAGTAACAATGAGAGTACCATATGGGA
1 TATACACACCATATTTATCATCAACAAGAACA-C---C---TAACAATGAGAGTACCATATGGGA
* *
156363 GAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGACATCAAAGGCACATGCT
59 GAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCT
* * *
156428 ATCAACTGCAGGTCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAACATGTGTATAT
124 ATCAACTGCAGGCCTATTTAGCAATGACTTTTCTCCTAACATATTTACCACCAACATGTATATAT
* * * *
156493 ATATA--TA--TATGTAGGCATGCATGTATACAGACCATATTTTCCATCAACAAGAACACCTAAC
189 ATATATGTAGGTATGCATGTATGTATGTATACAGACCATATTTTCCATCAACAAGAACACCTAAC
156554 AATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATA
254 AATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATA
156619 AGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATT
319 AGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATT
*
156684 TACCACCAACATGTATATATATATGTAGGTATGCATGCATGCATGTATGTATG
384 TACCACCAACATG--TATATATATGTAGGTATGCATG--TG--TG--TGTGTG
* *
156737 TATACAGACCATATTT-TCCATCAACAAGAACACCTAACAATGAGAGTACCTTATGGGAGAAGAA
1 TATACACACCATATTTAT-CATCAACAAGAACACCTAACAATGAGAGTACCATATGGGAGAAGAA
* *
156801 ACATGTATAGGTTGGT-ACGCAATTTAAAACAATGCCTATAAGAAATCAAAGGCAT-TACTATCA
65 ACATGTATAGGTTGGTCAC-C-ATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCA
* *
156864 ACTGCAGGCCTATTTAGCAATGACTTTTGTCTTAACATATT
128 ACTGCAGGCCTATTTAGCAATGACTTTTCTCCTAACATATT
156905 CATCGATATA
Statistics
Matches: 936, Mismatches: 68, Indels: 64
0.88 0.06 0.06
Matches are distributed among these distances:
418 60 0.06
419 1 0.00
420 117 0.12
422 4 0.00
424 13 0.01
427 5 0.01
428 33 0.04
429 1 0.00
430 3 0.00
431 188 0.20
432 98 0.10
433 55 0.06
434 133 0.14
435 187 0.20
436 1 0.00
437 2 0.00
438 2 0.00
439 33 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (428 bp):
TATACACACCATATTTATCATCAACAAGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAA
CATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACT
GCAGGCCTATTTAGCAATGACTTTTCTCCTAACATATTTACCACCAACATGTATATATATATATG
TAGGTATGCATGTATGTATGTATACAGACCATATTTTCCATCAACAAGAACACCTAACAATGAGA
GTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATC
AAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACC
AACATGTATATATATGTAGGTATGCATGTGTGTGTGTG
Found at i:156629 original size:211 final size:211
Alignment explanation
Indices: 155649--156904 Score: 1726
Period size: 215 Copynumber: 5.9 Consensus size: 211
155639 ATGCATGCAT
* * * * * *
155649 TATGTATGTATGTATGTATAGACACCATATTTACTATTAACAAGAACACCTAACAATGAGAGCAC
1 TATGTAGGTATGTATGTATACACACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTAC
*
155714 CATATGGGAGAAGAAACATGTATAGTTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAACA
66 CATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAA-A
* *
155779 -GCATATGCTATCAACCGGAGGCCTATTTTTAGCCATGACTTTTCTCCTAACATATTTACCACCA
130 GGCATATGCTATCAACTGCAGGCCTA--TTTAGCCATGACTTTTCTCCTAACATATTTACCACCA
155843 ACATG--------TATATA
193 ACATGTATATATATATATA
** * *
155854 TATGTAGGTATGCGTGTATACACACCATATTTTTCATCAACAAGAACACCTAACAATGAGAATAC
1 TATGTAGGTATGTATGTATACACACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTAC
* *
155919 CATATGGGAGAAGAAACATTTATAGGTTGGTGACCATTTGAAACAATGCCTATAAGAAATCAAAG
66 CATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAAG
* *
155984 GCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAAAATATTTTCCACCAACA
131 GCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAACA
156049 TGTATATATATATATGTA
196 TGTATATATATATA--TA
* * * *
156067 GGTATGCATGTATGTATGTATACAGACTATATTTTCCATCAACAAGAACACCTAACAATGAGAGT
1 --TATGTAGGTATGTATGTATACACACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGT
* * * * *
156132 ATCATATAGGAGAAGAAACATGTGTAGGTTGGTCACCATTTGAAACAATGCTTATACGAAATCAA
64 ACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAA
*
156197 AGGCATATGCTATCAACTGCAGGCCTATATAGCCATGACTTTTCTCCTAACATATTTACCACCAA
129 AGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAA
* **
156262 CATGTATATATATGTAGG
194 CATGTATATATATATATA
* * * *
156280 TATGCATGTGTGTGTGTGTATACACACCATATTTAT-CATTAACAAGAACACCTAACAAGTAACA
1 TATGTA-G-GTATGTATGTATACACACCATATTT-TCCATCAACAAGAACA-C---C---TAACA
156344 ATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAA
56 ATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAA
* * *
156409 GACATCAAAGGCACATGCTATCAACTGCAGGTCTATTTAGCCATGACTTTTCTCCTAACATATTT
121 GAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTT
*
156474 ACCACCAACATGTGTATATATATATA
186 ACCACCAACATGTATATATATATATA
* * *
156500 TATGTAGGCATGCATGTATACAGACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTAC
1 TATGTAGGTATGTATGTATACACACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTAC
156565 CATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAAG
66 CATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAAG
156630 GCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAACA
131 GCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAACA
156695 TGTATATATATATGTAGGTA
196 TGTATATATATA--TA--TA
* *
156715 TGCATGCATGCATGTATGTATGTATACAGACCATATTTTCCATCAACAAGAACACCTAACAATGA
1 T--ATG--T--AGGTATGTATGTATACACACCATATTTTCCATCAACAAGAACACCTAACAATGA
* *
156780 GAGTACCTTATGGGAGAAGAAACATGTATAGGTTGGT-ACGCAATTTAAAACAATGCCTATAAGA
60 GAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCAC-C-ATTTGAAACAATGCCTATAAGA
* * * *
156844 AATCAAAGGCAT-TACTATCAACTGCAGGCCTATTTAGCAATGACTTTTGTCTTAACATATT
123 AATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATT
156905 CATCGATATA
Statistics
Matches: 938, Mismatches: 77, Indels: 56
0.88 0.07 0.05
Matches are distributed among these distances:
203 40 0.04
204 1 0.00
205 138 0.15
211 163 0.17
213 38 0.04
214 3 0.00
215 193 0.21
217 6 0.01
218 33 0.04
219 2 0.00
220 155 0.17
221 133 0.14
222 33 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (211 bp):
TATGTAGGTATGTATGTATACACACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTAC
CATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAAG
GCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAACA
TGTATATATATATATA
Found at i:156692 original size:646 final size:641
Alignment explanation
Indices: 155443--156904 Score: 2110
Period size: 646 Copynumber: 2.3 Consensus size: 641
155433 ATATATAAAC
* *
155443 ACCATATTTACCATCAACAAGAACACCTAACAA--ATGAGTACCATATAGGAGAAGAAACATATA
1 ACCATATTTTCCATCAACAAGAACACCTAACAATGA-GAGTACCATATAGGAGAAGAAACATGTA
*
155506 TAGGTTGGTACACTATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGG
65 TAGGTTGGT-CACCATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGG
* * * * *
155571 TCTATTTAGCAATGACTTTTCTCCTAACATATTTACGATCAATATGTATATGTGTATCTGTGTTT
129 CCTATTTAGCAATGACTTTTCTCCTAACATATTTACCACCAACATGTATA---GTA-CTATG-TT
*
155636 AGCATGCATGCATTATGTATGTATGTATGTATAGACACCATATTTACTATTAACAAGAACACCTA
189 AG-A-GCATGC--TATG-ATGTATGTATGTATACACACCATATTTACTATTAACAAGAACACCTA
*
155701 ACAATGAGAGCACCATATGGGAGAAGAAACATGTATAGTTTGGTCACCATTTGAAACAATGCCTA
249 ACAATGAGAGCACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTA
* *
155766 TAAGAAATCAACAGCATATGCTATCAACCGGAGGCCTATTTTTAGCCATGACTTTTCTCCTAACA
314 TAAGAAATCAACAGCACATGCTATCAACCGCAGGCCTA-TTTTAGCCATGACTTTTCTCCTAACA
* * *
155831 TATTTACCACCAACATGTATATATATGTAGGTATGCGTGTATACACACCATATTTTTCATCAACA
378 TATTTACCACCAACATGTATATATATGTAGGCATGCATGTATACACACCATATTTTCCATCAACA
* *
155896 AGAACACCTAACAATGAGAATACCATATGGGAGAAGAAACATTTATAGGTTGGTGACCATTTGAA
443 AGAACACCTAACAATGAGAATACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
155961 ACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
508 ACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
* * *
156026 TCCTAAAATATTTTCCACCAACATGTATATATATA-TATGTA-G-GTATGCATGTATGTATGTAT
573 TCCTAAAATATTTACCACCAACATGTATATATATAGTAGGTATGAGCATGCATGTATGTATGTAT
156088 ACAG
638 ACAG
* * *
156092 ACTATATTTTCCATCAACAAGAACACCTAACAATGAGAGTATCATATAGGAGAAGAAACATGTGT
1 ACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTACCATATAGGAGAAGAAACATGTAT
* *
156157 AGGTTGGTCACCATTTGAAACAATGCTTATACGAAATCAAAGGCATATGCTATCAACTGCAGGCC
66 AGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCC
* * *
156222 TATATAGCCATGACTTTTCTCCTAACATATTTACCACCAACATGTATA-TA-TATG-TAG-GTAT
131 TATTTAGCAATGACTTTTCTCCTAACATATTTACCACCAACATGTATAGTACTATGTTAGAGCAT
* *
156283 GC-ATG-TGTGTGTGTGTATACACACCATATTTA-TCATTAACAAGAACACCTAACAAGTAACAA
196 GCTATGATGTATGTATGTATACACACCATATTTACT-ATTAACAAGAACA-C---C---TAACAA
*
156345 TGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAG
253 TGAGAGCACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAG
* * *
156410 ACATCAA-AGGCACATGCTATCAACTGCAGGTCTA-TTTAGCCATGACTTTTCTCCTAACATATT
318 AAATCAACA-GCACATGCTATCAACCGCAGGCCTATTTTAGCCATGACTTTTCTCCTAACATATT
*
156473 TACCACCAACATGTGTATATATATATATATGTAGGCATGCATGTATACAGACCATATTTTCCATC
382 TACCACCAACA--TG------TATATATATGTAGGCATGCATGTATACACACCATATTTTCCATC
*
156538 AACAAGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATT
439 AACAAGAACACCTAACAATGAGAATACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATT
156603 TGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACT
504 TGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACT
*
156668 TTTCTCCTAACATATTTACCACCAACATGTATATATATATGTAGGTATGCATGCATGCATGTATG
569 TTTCTCCTAAAATATTTACCACCAACATGTATATATATA-GTAGGTATG-A-GCATGCATGTATG
156733 TATGTATACAG
631 TATGTATACAG
* *
156744 ACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTACCTTATGGGAGAAGAAACATGTAT
1 ACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTACCATATAGGAGAAGAAACATGTAT
* *
156809 AGGTTGGT-ACGCAATTTAAAACAATGCCTATAAGAAATCAAAGGCAT-TACTATCAACTGCAGG
66 AGGTTGGTCAC-C-ATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGG
* *
156872 CCTATTTAGCAATGACTTTTGTCTTAACATATT
129 CCTATTTAGCAATGACTTTTCTCCTAACATATT
156905 CATCGATATA
Statistics
Matches: 736, Mismatches: 50, Indels: 51
0.88 0.06 0.06
Matches are distributed among these distances:
632 1 0.00
633 37 0.05
634 1 0.00
635 3 0.00
637 1 0.00
638 45 0.06
639 1 0.00
640 98 0.13
641 3 0.00
643 3 0.00
645 2 0.00
646 204 0.28
648 5 0.01
649 128 0.17
650 34 0.05
651 3 0.00
652 136 0.18
653 31 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (641 bp):
ACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTACCATATAGGAGAAGAAACATGTAT
AGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCC
TATTTAGCAATGACTTTTCTCCTAACATATTTACCACCAACATGTATAGTACTATGTTAGAGCAT
GCTATGATGTATGTATGTATACACACCATATTTACTATTAACAAGAACACCTAACAATGAGAGCA
CCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAAGAAATCAAC
AGCACATGCTATCAACCGCAGGCCTATTTTAGCCATGACTTTTCTCCTAACATATTTACCACCAA
CATGTATATATATGTAGGCATGCATGTATACACACCATATTTTCCATCAACAAGAACACCTAACA
ATGAGAATACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCTATAA
GAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAAAATATTT
ACCACCAACATGTATATATATAGTAGGTATGAGCATGCATGTATGTATGTATACAG
Found at i:157828 original size:16 final size:16
Alignment explanation
Indices: 157807--157837 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
157797 AATTGAGAAA
157807 AAAAAAGAAAGAAAAG
1 AAAAAAGAAAGAAAAG
157823 AAAAAAGAAAGAAAA
1 AAAAAAGAAAGAAAA
157838 TTGGAGCAAA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAGAAAAG
Found at i:163595 original size:31 final size:31
Alignment explanation
Indices: 163559--163627 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
163549 TTACAAAATG
*
163559 ATCATTGAATTATTCGAAA-GTTTTAATTTAA
1 ATCATTGAACTATTC-AAATGTTTTAATTTAA
* *
163590 GTCATTGAACTATTCAAATGTTTTTATTTAA
1 ATCATTGAACTATTCAAATGTTTTAATTTAA
163621 ATCATTG
1 ATCATTG
163628 GATTGTTGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (31 bp):
ATCATTGAACTATTCAAATGTTTTAATTTAA
Found at i:165012 original size:21 final size:21
Alignment explanation
Indices: 164988--165035 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
164978 AAAAAAAAAG
164988 AAAATAACAACAAAATAGTAA
1 AAAATAACAACAAAATAGTAA
* * *
165009 AAAACAGCAAGAAAATAGTAA
1 AAAATAACAACAAAATAGTAA
*
165030 CAAATA
1 AAAATA
165036 GCTTCTTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.12
Consensus pattern (21 bp):
AAAATAACAACAAAATAGTAA
Found at i:165884 original size:17 final size:16
Alignment explanation
Indices: 165862--165893 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
165852 GGTTCATTCG
165862 TATTATTTTATATATTA
1 TATTATTTTA-ATATTA
165879 TATTATTTTAATATT
1 TATTATTTTAATATT
165894 TAATAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTATTTTAATATTA
Found at i:172311 original size:132 final size:132
Alignment explanation
Indices: 172074--172336 Score: 526
Period size: 132 Copynumber: 2.0 Consensus size: 132
172064 TTGAACATTA
172074 TAAGTCTTAGGTGCTAACTGCTCTACTCTGTCTGTACTATTTTCATTGAATCTAATAATGACCTT
1 TAAGTCTTAGGTGCTAACTGCTCTACTCTGTCTGTACTATTTTCATTGAATCTAATAATGACCTT
172139 GATATTTTTTTTATTTTTGAGAATTTTTATTTTCTTAAGTTCTATTCAGGTGTTGGGAGAGGCTT
66 GATATTTTTTTTATTTTTGAGAATTTTTATTTTCTTAAGTTCTATTCAGGTGTTGGGAGAGGCTT
172204 AT
131 AT
172206 TAAGTCTTAGGTGCTAACTGCTCTACTCTGTCTGTACTATTTTCATTGAATCTAATAATGACCTT
1 TAAGTCTTAGGTGCTAACTGCTCTACTCTGTCTGTACTATTTTCATTGAATCTAATAATGACCTT
172271 GATATTTTTTTTATTTTTGAGAATTTTTATTTTCTTAAGTTCTATTCAGGTGTTGGGAGAGGCTT
66 GATATTTTTTTTATTTTTGAGAATTTTTATTTTCTTAAGTTCTATTCAGGTGTTGGGAGAGGCTT
172336 A
131 A
172337 CCAAGTATTA
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 131 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.48
Consensus pattern (132 bp):
TAAGTCTTAGGTGCTAACTGCTCTACTCTGTCTGTACTATTTTCATTGAATCTAATAATGACCTT
GATATTTTTTTTATTTTTGAGAATTTTTATTTTCTTAAGTTCTATTCAGGTGTTGGGAGAGGCTT
AT
Found at i:189039 original size:16 final size:15
Alignment explanation
Indices: 189018--189056 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
189008 AATTAACTTT
*
189018 AAATTTTAATATTTTA
1 AAATTTTAA-AATTTA
189034 AAATTTTTAAAATTTA
1 AAA-TTTTAAAATTTA
189050 AAATTTT
1 AAATTTT
189057 TTAGAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 11 0.52
17 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AAATTTTAAAATTTA
Found at i:191642 original size:23 final size:23
Alignment explanation
Indices: 191544--191669 Score: 111
Period size: 23 Copynumber: 5.5 Consensus size: 23
191534 AAGTGCTGGG
*
191544 GAAACAGTAAGCACAC-ACAATGC
1 GAAACAGTAAGCACACGA-AGTGC
*
191567 -AATCCAGTAAGCACAC-ACAGTGC
1 GAA-ACAGTAAGCACACGA-AGTGC
* * *
191590 -AATCAGTAGGCACAC-ATAGCGC
1 GAAACAGTAAGCACACGA-AGTGC
*
191612 -AAATCAGTAAGCACATGAAGTGC
1 GAAA-CAGTAAGCACACGAAGTGC
191635 GAAACAGTAAGCACACGAAGTGC
1 GAAACAGTAAGCACACGAAGTGC
191658 GAAACAGTAAGC
1 GAAACAGTAAGC
191670 GCGCTAGCGT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
22 20 0.23
23 64 0.73
24 4 0.05
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (23 bp):
GAAACAGTAAGCACACGAAGTGC
Done.