Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 34 of 362
Found at i:9989351 original size:23 final size:22
Alignment explanation
Indices: 9989044--9989350 Score: 197
Period size: 23 Copynumber: 13.4 Consensus size: 22
9989034 GTACTTAAAA
* **
9989044 ACTTCAATTTATAGCATCCAAAC
1 ACTTCAATTTACAGCAT-TTAAC
*
9989067 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
*
9989090 ACTTCAATTTACAGTATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
* **
9989113 ACTTTAATTTGTAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
* * * *
9989136 GCCTCAATTAACAACATTTATAC
1 ACTTCAATTTACAGCATTTA-AC
* **
9989159 ACCTCAA-TTACAGCGATAAAAC
1 ACTTCAATTTACAGC-ATTTAAC
* * * *
9989181 A-TCTCAATGTCCAGCAACTAAAC
1 ACT-TCAATTTACAGC-ATTTAAC
* * *
9989204 ACTTCAATTTGCAGTACTTAAAC
1 ACTTCAATTTACAGCA-TTTAAC
*
9989227 ACTTCAATTTACAACATTTAAGC
1 ACTTCAATTTACAGCATTTAA-C
9989250 ACTTCAATTTACAGCATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
* *
9989273 ACTTTAATTTACAGCATTCAAAC
1 ACTTCAATTTACAGCATT-TAAC
*
9989296 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
* *
9989319 A-TCTCAATTAACAACATTTATAC
1 ACT-TCAATTTACAGCATTTA-AC
*
9989342 ACCTCAATT
1 ACTTCAATT
9989351 ACATGAGTTG
Statistics
Matches: 222, Mismatches: 46, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
22 29 0.13
23 184 0.83
24 9 0.04
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (22 bp):
ACTTCAATTTACAGCATTTAAC
Found at i:9989921 original size:30 final size:29
Alignment explanation
Indices: 9989885--9989943 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
9989875 CAATTTAACA
9989885 AGCAAATACCTCTAAAATAATAACAAAATT
1 AGCAAATACCTCTAAAATAATAA-AAAATT
** *
9989915 AGCAAATGTCTTTAAAATAATAAAAAATT
1 AGCAAATACCTCTAAAATAATAAAAAATT
9989944 TAACAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (29 bp):
AGCAAATACCTCTAAAATAATAAAAAATT
Found at i:9990306 original size:4 final size:4
Alignment explanation
Indices: 9990299--9990324 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9990289 ATCATAAACA
9990299 AACT AACT AACT AACT AACT AACT AA
1 AACT AACT AACT AACT AACT AACT AA
9990325 ACAGGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
AACT
Found at i:9994298 original size:7 final size:7
Alignment explanation
Indices: 9994280--9994408 Score: 159
Period size: 7 Copynumber: 18.0 Consensus size: 7
9994270 ATATGGATTA
*
9994280 AAATATT
1 AAATTTT
9994287 AAATTTTT
1 AAA-TTTT
*
9994295 AATTTTT
1 AAATTTT
*
9994302 TAATTTT
1 AAATTTT
*
9994309 TAATTTT
1 AAATTTT
*
9994316 TAATTTT
1 AAATTTT
*
9994323 TAATTTT
1 AAATTTT
9994330 AAATTTT
1 AAATTTT
9994337 AAATTTT
1 AAATTTT
9994344 AAATTTT
1 AAATTTT
9994351 AAATTTT
1 AAATTTT
9994358 AAATTTT
1 AAATTTT
9994365 AAATTTTTT
1 AAA--TTTT
* *
9994374 TATTTTT
1 AAATTTT
9994381 AAATTTT
1 AAATTTT
9994388 AAATTTT
1 AAATTTT
9994395 AAATTTT
1 AAATTTT
9994402 AAATTTT
1 AAATTTT
9994409 TTTGAGGATT
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
7 100 0.91
8 5 0.05
9 5 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
AAATTTT
Found at i:9994920 original size:14 final size:14
Alignment explanation
Indices: 9994882--9994914 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9994872 TATAAACCAC
*
9994882 TAAATCCTAAATCA
1 TAAACCCTAAATCA
9994896 TAAACCCTAAATCA
1 TAAACCCTAAATCA
9994910 TAAAC
1 TAAAC
9994915 TTTAAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:9994920 original size:21 final size:22
Alignment explanation
Indices: 9994844--9994937 Score: 70
Period size: 21 Copynumber: 4.4 Consensus size: 22
9994834 TTTACAATAC
* *
9994844 CATAAACCATAAA-CACTAAAAC
1 CATAAACTATAAACCACT-AAAT
*
9994866 CCT-AACTATAAACCACTAAAT
1 CATAAACTATAAACCACTAAAT
*
9994887 CCTAAA-TCATAAACC-CTAAAT
1 CATAAACT-ATAAACCACTAAAT
* * * *
9994908 CATAAACTTTAAAACACAAAAC
1 CATAAACTATAAACCACTAAAT
9994930 CATAAACT
1 CATAAACT
9994938 CGAAATAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
21 31 0.53
22 28 0.47
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (22 bp):
CATAAACTATAAACCACTAAAT
Found at i:9995183 original size:22 final size:22
Alignment explanation
Indices: 9995140--9995185 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
9995130 CTTAAACCCC
* **
9995140 AACCCTTAAACCATAATTCTTA
1 AACCCATAAACCATAAACCTTA
*
9995162 AACCCATAATCCATAAACCTTA
1 AACCCATAAACCATAAACCTTA
9995184 AA
1 AA
9995186 ATAGTAACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCATAAACCATAAACCTTA
Found at i:9995321 original size:19 final size:19
Alignment explanation
Indices: 9995297--9995340 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
9995287 TTTTACAATT
9995297 ATATAAGAAAATATTTAAC
1 ATATAAGAAAATATTTAAC
9995316 ATATAAGAAAATATTTAAC
1 ATATAAGAAAATATTTAAC
9995335 ATATAA
1 ATATAA
9995341 ATTAAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
ATATAAGAAAATATTTAAC
Found at i:9995845 original size:131 final size:134
Alignment explanation
Indices: 9995666--9995940 Score: 454
Period size: 131 Copynumber: 2.1 Consensus size: 134
9995656 AAAAGTTTTT
*
9995666 GCGGC-TTTTTAAAAAAAACGCCACTAGAGCCACCAAAAAGTGCAAAATTTTTTGCGGCGTATTT
1 GCGGCGTTTTTAAAAAAAACGCCACTAAAGCCACCAAAAAGTGCAAAATTTTTTGCGGCGT-TTT
*
9995730 -TGAAAAGCGCCGCTAAAAATCAAGCATTAGCGGCATTTTTTAAAAAGCG-CTACTAATACTCGA
65 ATGAAAAGCACCGCTAAAAATCAAGCATTAGCGGCATTTTTTAAAAAGCGCCT-CTAATACTCGA
9995793 TCTTTA
129 TCTTTA
*
9995799 GCGGCGTTTTT-AAAAAAA-GCCACTAAAGCCA-CTAAAAGTGCAAAATTTTTTGCGGCGTTTTA
1 GCGGCGTTTTTAAAAAAAACGCCACTAAAGCCACCAAAAAGTGCAAAATTTTTTGCGGCGTTTTA
*
9995861 TGAAAAGCACCGCTAAAAATCAAGCATTAGCGGCATTTTTTAAAAAGCGCCTCTAATACTTGATC
66 TGAAAAGCACCGCTAAAAATCAAGCATTAGCGGCATTTTTTAAAAAGCGCCTCTAATACTCGATC
9995926 TTTA
131 TTTA
9995930 GCGGCGTTTTT
1 GCGGCGTTTTT
9995941 TAGAAAGTGC
Statistics
Matches: 135, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
130 3 0.02
131 101 0.75
132 14 0.10
133 12 0.09
134 5 0.04
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (134 bp):
GCGGCGTTTTTAAAAAAAACGCCACTAAAGCCACCAAAAAGTGCAAAATTTTTTGCGGCGTTTTA
TGAAAAGCACCGCTAAAAATCAAGCATTAGCGGCATTTTTTAAAAAGCGCCTCTAATACTCGATC
TTTA
Found at i:9997929 original size:11 final size:11
Alignment explanation
Indices: 9997913--9997964 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
9997903 TCCCTCTTAT
9997913 TCTTCTTTTTC
1 TCTTCTTTTTC
*
9997924 TCTTCTTCTTC
1 TCTTCTTTTTC
* *
9997935 TTCTTTTTTTTT
1 -TCTTCTTTTTC
* *
9997947 TCTTCTCTTTG
1 TCTTCTTTTTC
9997958 TCTTCTT
1 TCTTCTT
9997965 CTACTACCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:9997935 original size:20 final size:20
Alignment explanation
Indices: 9997907--9997952 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
9997897 TTCTCCTCCC
*
9997907 TCTTATTCTTCTTTTTCTCT
1 TCTTCTTCTTCTTTTTCTCT
* *
9997927 TCTTCTTCTTCTTTTTTTTT
1 TCTTCTTCTTCTTTTTCTCT
9997947 TCTTCT
1 TCTTCT
9997953 CTTTGTCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (20 bp):
TCTTCTTCTTCTTTTTCTCT
Found at i:9997950 original size:14 final size:14
Alignment explanation
Indices: 9997916--9997966 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
9997906 CTCTTATTCT
*
9997916 TCTTTTTCTCTTCT-
1 TCTTCTTCTCTT-TG
* *
9997930 TCTTCTTCTTTTTT
1 TCTTCTTCTCTTTG
*
9997944 TTTTCTTCTCTTTG
1 TCTTCTTCTCTTTG
9997958 TCTTCTTCT
1 TCTTCTTCT
9997967 ACTACCTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 1 0.03
14 29 0.97
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (14 bp):
TCTTCTTCTCTTTG
Found at i:9999010 original size:14 final size:14
Alignment explanation
Indices: 9998991--9999020 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9998981 TAAAATAAGT
9998991 AATAAAATATAGAA
1 AATAAAATATAGAA
9999005 AATAAAATATAGAA
1 AATAAAATATAGAA
9999019 AA
1 AA
9999021 AGAACAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AATAAAATATAGAA
Found at i:10010223 original size:23 final size:22
Alignment explanation
Indices: 10010169--10010229 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
10010159 GACATAGAAA
10010169 GTGCCTAAA-ACGACACACGAG
1 GTGCCTAAATACGACACACGAG
* *
10010190 GTGCCT-GATACGATACACGAG
1 GTGCCTAAATACGACACACGAG
10010211 GTGCCTAAAATACGACACA
1 GTGCCT-AAATACGACACA
10010230 TAAAGTGCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 23 0.70
23 9 0.27
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (22 bp):
GTGCCTAAATACGACACACGAG
Found at i:10010643 original size:15 final size:14
Alignment explanation
Indices: 10010619--10010658 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
10010609 TATATATTAT
10010619 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
10010633 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
10010648 ATAAATTCAAT
1 AT-AATTCAAT
10010659 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:10011043 original size:51 final size:51
Alignment explanation
Indices: 10010987--10011088 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
10010977 CATCCGAAAT
* * *
10010987 TATTACTTTGTTATTCTGGCTTCAACAAGAACTTCATATTTCATCCGGATA
1 TATTACTTTATTACTCTAGCTTCAACAAGAACTTCATATTTCATCCGGATA
* * *
10011038 TATTACTTTATTGCTCTAGCTTCAACAGGAGCTTCATATTTCATCCGGATA
1 TATTACTTTATTACTCTAGCTTCAACAAGAACTTCATATTTCATCCGGATA
10011089 ACTTAGTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (51 bp):
TATTACTTTATTACTCTAGCTTCAACAAGAACTTCATATTTCATCCGGATA
Found at i:10011691 original size:31 final size:32
Alignment explanation
Indices: 10011633--10011696 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
10011623 CATACATTTG
*
10011633 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
10011665 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
10011696 T
1 T
10011697 TTTATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:10011706 original size:17 final size:20
Alignment explanation
Indices: 10011685--10011725 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
10011675 ATTATTTAAT
10011685 TAATAAATATCTTTT-ATAAA
1 TAATAAATATCTTTTAAT-AA
10011705 TAATAAATATCTTTTAATAA
1 TAATAAATATCTTTTAATAA
10011725 T
1 T
10011726 TAAATACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATAAATATCTTTTAATAA
Found at i:10012667 original size:224 final size:224
Alignment explanation
Indices: 10012277--10012719 Score: 778
Period size: 224 Copynumber: 2.0 Consensus size: 224
10012267 GAATCTGTAA
*
10012277 AACCACTCTGAGATGCTCATCGTGCTGATCCTCTGTCTTAGAATACACAAAAATGTCGTCGATGA
1 AACCACTCTGAGATGCTCATCGTGCTGATCCTCTGTCTTAGAATACACAAAAATGTCGCCGATGA
* * *
10012342 GCACCACCACAAACTAATCCAGGTAGGGCTGAAATACTCGGTTCATTAAATTCATAAATGCTGTC
66 GAACCACCACAAACAAATCCAGGTAGGGCTAAAATACTCGGTTCATTAAATTCATAAATGCTGTC
*
10012407 GGTGCATTAGCCAAACCAAAGGGCATAACTAGGAACTCGTAATGTCCATATCGAGTCCTAAATGC
131 GGTGCATTAGCCAAACCAAAGGCCATAACTAGGAACTCGTAATGTCCATATCGAGTCCTAAATGC
*
10012472 CTTTTTATGCACATCAGCCTCCTTCTTAG
196 CTTCTTATGCACATCAGCCTCCTTCTTAG
* *
10012501 AACCACTTTGAGATGCTCATCGTGCTGATCCTCTGTCTTAGAATACACCAAAATGTCGCCGATGA
1 AACCACTCTGAGATGCTCATCGTGCTGATCCTCTGTCTTAGAATACACAAAAATGTCGCCGATGA
10012566 GAACCACCACAAACAAATCCAGGTAGGGCTAAAATACTCGGTTCATTAAATTCATAAATGCTGTC
66 GAACCACCACAAACAAATCCAGGTAGGGCTAAAATACTCGGTTCATTAAATTCATAAATGCTGTC
* * *
10012631 GGTGCATTAGTCAAGCCAAAGGCCATAACTAGGAACTCGTAATGTCTATATCGAGTCCTAAATGC
131 GGTGCATTAGCCAAACCAAAGGCCATAACTAGGAACTCGTAATGTCCATATCGAGTCCTAAATGC
*
10012696 CTTCTTATGCACATCGGCCTCCTT
196 CTTCTTATGCACATCAGCCTCCTT
10012720 AACTCTCAAC
Statistics
Matches: 207, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
224 207 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (224 bp):
AACCACTCTGAGATGCTCATCGTGCTGATCCTCTGTCTTAGAATACACAAAAATGTCGCCGATGA
GAACCACCACAAACAAATCCAGGTAGGGCTAAAATACTCGGTTCATTAAATTCATAAATGCTGTC
GGTGCATTAGCCAAACCAAAGGCCATAACTAGGAACTCGTAATGTCCATATCGAGTCCTAAATGC
CTTCTTATGCACATCAGCCTCCTTCTTAG
Found at i:10021993 original size:18 final size:18
Alignment explanation
Indices: 10021967--10022003 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10021957 CGATTTTCTT
10021967 TAGCCGAACCACTCTTGC
1 TAGCCGAACCACTCTTGC
*
10021985 TAGCTGAACCACTCTTGC
1 TAGCCGAACCACTCTTGC
10022003 T
1 T
10022004 TTCTTCTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.35, G:0.16, T:0.27
Consensus pattern (18 bp):
TAGCCGAACCACTCTTGC
Found at i:10038590 original size:10 final size:11
Alignment explanation
Indices: 10038574--10038603 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
10038564 CCAATTTGTG
10038574 AAAAATAAAAT
1 AAAAATAAAAT
10038585 -AAAATAAAAT
1 AAAAATAAAAT
10038595 AAAAATAAA
1 AAAAATAAA
10038604 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:10040202 original size:26 final size:26
Alignment explanation
Indices: 10040173--10040282 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
10040163 TGGTACAAAT
10040173 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
10040199 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
10040225 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
10040251 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
10040277 TGATAA
1 TGATAA
10040283 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:10041764 original size:28 final size:26
Alignment explanation
Indices: 10041722--10041796 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
10041712 AAAAGTAGCT
* * * *
10041722 AAATTACTATAATACCTCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
10041750 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
10041776 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
10041797 GGTTAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.56
27 1 0.02
28 17 0.41
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:10041941 original size:27 final size:27
Alignment explanation
Indices: 10041898--10041984 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
10041888 TGGAGGAAGC
*
10041898 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
10041925 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
10041952 GTTCTGGTGGCTCTGTCAC-ATTATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
10041978 GTTCTGG
1 GTTCTGG
10041985 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 12 0.23
27 41 0.77
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:10047444 original size:21 final size:20
Alignment explanation
Indices: 10047414--10047472 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
10047404 GGTTGGTGCT
10047414 TGTTAAATTATTAAATTATA
1 TGTTAAATTATTAAATTATA
10047434 TGTTATAATTATGTTAAATTATA
1 TGTTA-AATTA--TTAAATTATA
10047457 -GTTAAAATATATTAAA
1 TGTT-AAAT-TATTAAA
10047473 ACATAAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.15
21 10 0.29
22 6 0.18
23 13 0.38
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
TGTTAAATTATTAAATTATA
Found at i:10047448 original size:11 final size:10
Alignment explanation
Indices: 10047414--10047472 Score: 50
Period size: 11 Copynumber: 5.7 Consensus size: 10
10047404 GGTTGGTGCT
10047414 TGTTAAATTA
1 TGTTAAATTA
10047424 --TTAAATTATA
1 TGTTAAA-T-TA
10047434 TGTTATAATTA
1 TGTTA-AATTA
10047445 TGTTAAATTA
1 TGTTAAATTA
*
10047455 TAGTTAAAATA
1 T-GTTAAATTA
*
10047466 TATTAAA
1 TGTTAAA
10047473 ACATAAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 5 0.12
9 1 0.02
10 13 0.32
11 16 0.39
12 4 0.10
13 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (10 bp):
TGTTAAATTA
Found at i:10054899 original size:20 final size:20
Alignment explanation
Indices: 10054861--10054899 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10054851 ATAGAATCAT
*
10054861 TTAAAAGTTAATTAATTAAA
1 TTAAAAGTTAAATAATTAAA
* *
10054881 TTAAAATTTAAATATTTAA
1 TTAAAAGTTAAATAATTAA
10054900 TATGTATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
TTAAAAGTTAAATAATTAAA
Found at i:10060324 original size:26 final size:26
Alignment explanation
Indices: 10060294--10060347 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
10060284 CATTACCGTG
*
10060294 TAATACAATGAAGGAAATAGCGTGTC
1 TAATACAATGAAGGAAATAGCATGTC
10060320 TAATACAATGAAGGAAATAGCATGTC
1 TAATACAATGAAGGAAATAGCATGTC
10060346 TA
1 TA
10060348 TTTGGGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.24
Consensus pattern (26 bp):
TAATACAATGAAGGAAATAGCATGTC
Found at i:10064112 original size:16 final size:16
Alignment explanation
Indices: 10064093--10064162 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
10064083 ATAACATGCC
10064093 AAATAAATTACATAAA
1 AAATAAATTACATAAA
10064109 AAATAAATTTA-ATCAACA
1 AAATAAA-TTACAT-AA-A
* * *
10064127 TAAA-ACA-CACATAAC
1 -AAATAAATTACATAAA
10064142 AAATAAATTACATAAA
1 AAATAAATTACATAAA
10064158 AAATA
1 AAATA
10064163 TTCTTTGTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
14 3 0.07
15 2 0.05
16 23 0.56
17 7 0.17
18 3 0.07
19 3 0.07
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:10065328 original size:15 final size:16
Alignment explanation
Indices: 10065286--10065329 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
10065276 AAAAGATATT
*
10065286 TAAAAATATAAATTTA
1 TAAAAATATAAATCTA
10065302 TGAAAAAT-TAAA-CTA
1 T-AAAAATATAAATCTA
10065317 TAAAAATATAAAT
1 TAAAAATATAAAT
10065330 TTTCATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 6 0.25
15 7 0.29
16 5 0.21
17 6 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (16 bp):
TAAAAATATAAATCTA
Found at i:10068479 original size:43 final size:43
Alignment explanation
Indices: 10068390--10068544 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 43
10068380 ATCGAGATGA
* * *
10068390 GATTACATATAAGACCATGTCTGGGACATTGGTAT--TATATTTT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGT-TA-TAT
* *
10068433 GATTACGTGTAAGACCGTGTCTGGGACATTGGCATCGTTATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATAT
*** * * * *
10068476 GATTTTGTGTAAGACCACGTCTGAGACGTTGGCATCGATATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATAT
** *
10068519 GAAAACATGTAAGACCATATCTGGGA
1 GATTACATGTAAGACCATGTCTGGGA
10068545 TATGGTATTG
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
43 87 0.97
44 2 0.02
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATAT
Found at i:10071415 original size:68 final size:69
Alignment explanation
Indices: 10071321--10071471 Score: 168
Period size: 68 Copynumber: 2.2 Consensus size: 69
10071311 TTTTTATATG
* *
10071321 TCAAATAT--TTACTTTTTTCAAGTACATTGTGGGTCTTATAAATTCTAATATTAT-AAA-AA-T
1 TCAAATATAATTA-TTTTTTCAAGTACATTGTGGGTATGATAAA-TCTAAT-TTATAAAACAATT
10071381 AATTATT
63 AATTATT
* ** * *
10071388 TCAATTATAATTATTTTTTCACTTACATTGTGTGTATGGTAAATCTAATTTATAAAATCAATTAA
1 TCAAATATAATTATTTTTTCAAGTACATTGTGGGTATGATAAATCTAATTTATAAAA-CAATTAA
10071453 TTATT
65 TTATT
10071458 TCAAATATAATTAT
1 TCAAATATAATTAT
10071472 ATTTAGTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
66 4 0.06
67 16 0.23
68 24 0.34
69 5 0.07
70 21 0.30
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (69 bp):
TCAAATATAATTATTTTTTCAAGTACATTGTGGGTATGATAAATCTAATTTATAAAACAATTAAT
TATT
Found at i:10072390 original size:32 final size:32
Alignment explanation
Indices: 10072349--10072416 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
10072339 AATGCAAACA
10072349 TAAAGAAAATAAAAAATATAATTATGGACCAC
1 TAAAGAAAATAAAAAATATAATTATGGACCAC
*
10072381 TAAAGAAAATAAAAGATATAATTATGGACCAC
1 TAAAGAAAATAAAAAATATAATTATGGACCAC
10072413 TAAA
1 TAAA
10072417 AGTGAGAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.59, C:0.09, G:0.10, T:0.22
Consensus pattern (32 bp):
TAAAGAAAATAAAAAATATAATTATGGACCAC
Found at i:10089316 original size:22 final size:22
Alignment explanation
Indices: 10089291--10089335 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10089281 CACAACTTCA
10089291 TAACCCCATCGTCTAGAAATAT
1 TAACCCCATCGTCTAGAAATAT
10089313 TAACCCCATCGTCTAGAAATAT
1 TAACCCCATCGTCTAGAAATAT
10089335 T
1 T
10089336 TGCAAACCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.29
Consensus pattern (22 bp):
TAACCCCATCGTCTAGAAATAT
Found at i:10090280 original size:19 final size:17
Alignment explanation
Indices: 10090258--10090296 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
10090248 AAAAATATAT
10090258 TTTATAATTTTTGAAAACA
1 TTTATAATTTTT-AAAA-A
10090277 TTTATAATTTTTAAAAA
1 TTTATAATTTTTAAAAA
10090294 TTT
1 TTT
10090297 TCTTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 4 0.20
19 12 0.60
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTATAATTTTTAAAAA
Found at i:10090311 original size:23 final size:22
Alignment explanation
Indices: 10090284--10090330 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10090274 ACATTTATAA
* *
10090284 TTTTTAAAAATTTTCTTCTTTT
1 TTTTTTAAAATTTTCTTCTGTT
* *
10090306 TTTTTTAGAATTTTTTTCTGTT
1 TTTTTTAAAATTTTCTTCTGTT
10090328 TTT
1 TTT
10090331 GAATTCTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTTAAAATTTTCTTCTGTT
Found at i:10095599 original size:36 final size:36
Alignment explanation
Indices: 10095552--10095624 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
10095542 TTAAGTGATT
10095552 AATTTGGAGATATGTTGGTCGATTTTTAGGTTATGG
1 AATTTGGAGATATGTTGGTCGATTTTTAGGTTATGG
10095588 AATTTGGAGATATGTTGGTCGATTTTTAGGTTATGG
1 AATTTGGAGATATGTTGGTCGATTTTTAGGTTATGG
10095624 A
1 A
10095625 GGCTTAGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.44
Consensus pattern (36 bp):
AATTTGGAGATATGTTGGTCGATTTTTAGGTTATGG
Found at i:10099936 original size:20 final size:21
Alignment explanation
Indices: 10099911--10099949 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10099901 ACACCTTGGA
10099911 TTCGAA-AAATCCCACTTTCT
1 TTCGAAGAAATCCCACTTTCT
*
10099931 TTCGAAGAAATCTCACTTT
1 TTCGAAGAAATCCCACTTT
10099950 AGATTCGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (21 bp):
TTCGAAGAAATCCCACTTTCT
Found at i:10099960 original size:21 final size:20
Alignment explanation
Indices: 10099909--10099962 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
10099899 CAACACCTTG
*
10099909 GATTCGAAAAATCCCACTTT
1 GATTCGAGAAATCCCACTTT
** *
10099929 CTTTCGAAGAAATCTCACTTT
1 GATTCG-AGAAATCCCACTTT
10099950 AGATTCGAGAAAT
1 -GATTCGAGAAAT
10099963 TCTAAAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (20 bp):
GATTCGAGAAATCCCACTTT
Found at i:10124321 original size:26 final size:26
Alignment explanation
Indices: 10124292--10124399 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
10124282 TGATACAAAT
10124292 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10124318 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10124344 TGATAATTGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10124370 TGATAATGGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
10124396 TGAT
1 TGAT
10124400 TGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10127785 original size:13 final size:13
Alignment explanation
Indices: 10127767--10127793 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10127757 AATTTAGTAT
10127767 TGATTCTATAAAG
1 TGATTCTATAAAG
10127780 TGATTCTATAAAG
1 TGATTCTATAAAG
10127793 T
1 T
10127794 TTAAGGAATT
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:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (13 bp):
TGATTCTATAAAG
Found at i:10135187 original size:23 final size:22
Alignment explanation
Indices: 10135138--10135187 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
10135128 TTTACCCTTA
* * *
10135138 ATTTTTTATTTTTATTAATTTT
1 ATTTTATATTTTTATAAAATTT
*
10135160 TTTTTATAGTTTTTATAAAATTT
1 ATTTTATA-TTTTTATAAAATTT
10135183 ATTTT
1 ATTTT
10135188 CTATAATTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (22 bp):
ATTTTATATTTTTATAAAATTT
Found at i:10135751 original size:30 final size:30
Alignment explanation
Indices: 10135717--10135775 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10135707 AATATTGTTT
10135717 TATCT-CTTTACAAATATTAAGAAATTTGTC
1 TATCTACTTTA-AAATATTAAGAAATTTGTC
* *
10135747 TATCTACTTTAATATATTAAGAATTTTGT
1 TATCTACTTTAAAATATTAAGAAATTTGT
10135776 TTTATCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (30 bp):
TATCTACTTTAAAATATTAAGAAATTTGTC
Found at i:10136917 original size:63 final size:65
Alignment explanation
Indices: 10136803--10136932 Score: 176
Period size: 64 Copynumber: 2.0 Consensus size: 65
10136793 TCCTAAATAT
* * *
10136803 AAAAAGATCAACAAATTTAGTCTTTCAATATTTACAAAATTTATAATTTTAGTTC-AATTTAAAA
1 AAAAAGATCAACAAATTTAGTCTCTCAACATTCACAAAATTTATAATTTTAGTTCTAATTTAAAA
* * *
10136867 AAAAAGCTCAATAAATTTAGTC-CTCAACATTCACAAAATTTATCAA-TTTAGTTCTAATTTTAA
1 AAAAAGATCAACAAATTTAGTCTCTCAACATTCACAAAATTTAT-AATTTTAGTTCTAATTTAAA
10136930 A
65 A
10136931 AA
1 AA
10136933 TATTCATAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 26 0.45
64 32 0.55
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (65 bp):
AAAAAGATCAACAAATTTAGTCTCTCAACATTCACAAAATTTATAATTTTAGTTCTAATTTAAAA
Found at i:10137580 original size:24 final size:24
Alignment explanation
Indices: 10137553--10137598 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10137543 ACATAATTAG
*
10137553 TATTAGACCACATG-ATAACTACAA
1 TATT-GACCAAATGCATAACTACAA
*
10137577 TATTGTCCAAATGCATAACTAC
1 TATTGACCAAATGCATAACTAC
10137599 TATTACACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (24 bp):
TATTGACCAAATGCATAACTACAA
Found at i:10138511 original size:24 final size:23
Alignment explanation
Indices: 10138475--10138524 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
10138465 ATATCTCAAT
*
10138475 TCAATATCTCATT-TCAATCCATA
1 TCAAAATCTCATTATC-ATCCATA
*
10138498 TCAAAATCATCATTATCATTCATA
1 TCAAAATC-TCATTATCATCCATA
10138522 TCA
1 TCA
10138525 TATCAACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.30
24 14 0.61
25 2 0.09
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (23 bp):
TCAAAATCTCATTATCATCCATA
Found at i:10138778 original size:47 final size:47
Alignment explanation
Indices: 10138688--10138780 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 47
10138678 ACCAACACAC
* * *
10138688 TAGTACATCACTCAGTGCCTCATCGGCTTTACCAAAGTAAACAGTAG
1 TAGTACATCACTCAGTACCTCATCGGATTAACCAAAGTAAACAGTAG
* *
10138735 TAGTACAGT-ACTTAGTACCTCATCGGATTAAACCGAAGT-AACAGTA
1 TAGTACA-TCACTCAGTACCTCATCGGATT-AACCAAAGTAAACAGTA
10138781 ACAGTACGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
47 31 0.79
48 8 0.21
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (47 bp):
TAGTACATCACTCAGTACCTCATCGGATTAACCAAAGTAAACAGTAG
Found at i:10141283 original size:93 final size:92
Alignment explanation
Indices: 10141125--10141294 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 92
10141115 GGATGGTTGA
* * *
10141125 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTCAGTT
10141190 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* * *
10141217 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTCAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTCAGT
10141282 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
10141295 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 24 0.34
93 47 0.66
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTCAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10141293 original size:46 final size:46
Alignment explanation
Indices: 10141129--10141299 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
10141119 GGTTGAGCAT
* *
10141129 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * *
10141174 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* *
10141219 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
10141267 CCGAGCTCGTTCAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
10141300 GGGGCGGGCT
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 24 0.23
46 37 0.35
47 28 0.27
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:10141560 original size:19 final size:20
Alignment explanation
Indices: 10141523--10141560 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
10141513 ATAAGGTGGT
10141523 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
10141543 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
10141561 GGTGGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:10144909 original size:15 final size:15
Alignment explanation
Indices: 10144889--10144918 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10144879 TTTACAATTC
10144889 AACCCTTATCTCAAT
1 AACCCTTATCTCAAT
10144904 AACCCTTATCTCAAT
1 AACCCTTATCTCAAT
10144919 TCCAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
AACCCTTATCTCAAT
Found at i:10149540 original size:27 final size:27
Alignment explanation
Indices: 10149259--10149534 Score: 367
Period size: 27 Copynumber: 10.2 Consensus size: 27
10149249 TAGTTTACTG
*
10149259 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
10149286 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAA
10149313 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * **
10149340 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
10149367 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
10149394 AATTACTAAAATA-CCCTTGATTTATAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
10149421 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
10149448 AATTATCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* **
10149475 AATTATCAAAATACCCCTAGTTTCAAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
10149502 AATTACCAAAATACCCCT-GATTTGTGA
1 AATTACCAAAATACCCCTAG-TTTGTAA
10149529 AATTAC
1 AATTAC
10149535 TGAAATTAGG
Statistics
Matches: 218, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 6 0.03
27 207 0.95
28 5 0.02
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:10150572 original size:9 final size:9
Alignment explanation
Indices: 10150558--10150594 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10150548 TATTGTTTGA
10150558 TATTCGAAT
1 TATTCGAAT
10150567 TATTCGAAT
1 TATTCGAAT
*
10150576 TATTCGAGT
1 TATTCGAAT
10150585 TATTCGAAT
1 TATTCGAAT
10150594 T
1 T
10150595 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10150668 original size:18 final size:18
Alignment explanation
Indices: 10150645--10150679 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10150635 AATTTAGTTG
10150645 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
*
10150663 ACTCGAATAATTCGATT
1 ACTCGAATAACTCGATT
10150680 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:10150792 original size:27 final size:27
Alignment explanation
Indices: 10150746--10150798 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
10150736 TCACCCTAAC
*
10150746 TGAAATACCCTTAACCTGTAAAATTAT
1 TGAAATACCCTCAACCTGTAAAATTAT
*
10150773 TGAAATACCCTCAACTTGTAAAATTA
1 TGAAATACCCTCAACCTGTAAAATTA
10150799 CCAAAGTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TGAAATACCCTCAACCTGTAAAATTAT
Found at i:10150808 original size:27 final size:27
Alignment explanation
Indices: 10150748--10150810 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
10150738 ACCCTAACTG
* **
10150748 AAATACCCTTAACCTGTAAAATTATTG
1 AAATACCCTCAACCTGTAAAATTATCC
*
10150775 AAATACCCTCAACTTGTAAAATTA-CC
1 AAATACCCTCAACCTGTAAAATTATCC
10150801 AAAGTACCCT
1 AAA-TACCCT
10150811 TGATTTACAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (27 bp):
AAATACCCTCAACCTGTAAAATTATCC
Found at i:10150824 original size:27 final size:26
Alignment explanation
Indices: 10150792--10150863 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
10150782 CTCAACTTGT
*
10150792 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTCGATTTAC
* ***
10150819 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACC-AAATACCCTCGATTTAC
10150846 AAAATTACCGAAATACCC
1 AAAATTACC-AAATACCC
10150864 CTGTAGGGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAATACCCTCGATTTAC
Found at i:10150878 original size:27 final size:27
Alignment explanation
Indices: 10150848--10151285 Score: 547
Period size: 27 Copynumber: 16.3 Consensus size: 27
10150838 CGATTTACAA
10150848 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
10150875 AATTATCGAAATAACCATATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
10150902 AATTATTGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
10150929 AATTA-CGAAAATACCCTTGTAGGGTAG
1 AATTACCG-AAATACCCCTGTAGGGTAG
* * *
10150956 AATTATCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
10150983 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
10151010 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
10151037 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
10151064 AATTACCGAAATACCGCTTTA-CGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
10151090 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
10151117 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
10151144 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10151171 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10151198 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
10151225 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
10151252 AATTACCGAGATACCCTTGTGGGGAAA
1 AATTACCGAAATACCCCTGTAGGGTAG
10151279 AATTACC
1 AATTACC
10151286 ATTTTACCCC
Statistics
Matches: 359, Mismatches: 49, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
26 24 0.07
27 333 0.93
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:10151619 original size:67 final size:67
Alignment explanation
Indices: 10151511--10151695 Score: 280
Period size: 67 Copynumber: 2.7 Consensus size: 67
10151501 GAGGAAGTGT
* *
10151511 TCTGGCAGCCTCGTTGCAATCTGGTGGCCTCACCACATATATCTATTCTGCTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGCTGACTTCGTCACAA
10151576 TA
66 TA
* * * *
10151578 TCTGGCAGCCTCGCTGTAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCATAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGCTGACTTCGTCACAA
10151643 TA
66 TA
* * *
10151645 TTTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATATCTG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTAT-TCTG
10151696 TTCTGGTGGC
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 102 0.96
68 4 0.04
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGCTGACTTCGTCACAA
TA
Found at i:10151713 original size:33 final size:32
Alignment explanation
Indices: 10151664--10151727 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
10151654 CTCGCTGCAA
* *
10151664 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
10151697 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
10151728 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:10151741 original size:27 final size:26
Alignment explanation
Indices: 10151689--10151748 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
10151679 ACATATATAT
*
10151689 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
10151715 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
10151742 ATATCTG
1 ATATCTG
10151749 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:10151902 original size:31 final size:31
Alignment explanation
Indices: 10151867--10151946 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
10151857 TTGCATTCAC
* *
10151867 ATTCTGATTTTGATTCTATTACCAGATAT-TG
1 ATTCTGATTCTGATTCTATCACCAGAT-TCTG
* *
10151898 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTATCACCAGATTCTG
10151929 ATTCTGATTCTGATTCTA
1 ATTCTGATTCTGATTCTA
10151947 GTTCTGATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 42 0.98
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATCACCAGATTCTG
Found at i:10151907 original size:6 final size:6
Alignment explanation
Indices: 10151896--10151954 Score: 68
Period size: 6 Copynumber: 9.7 Consensus size: 6
10151886 TACCAGATAT
*
10151896 TGATTC TGATTC TGATTC TG-TCACC TGATTC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC
10151945 T-AGTTC TGAT
1 TGA-TTC TGAT
10151955 AATATTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
5 2 0.04
6 39 0.85
7 4 0.09
8 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:10156114 original size:39 final size:40
Alignment explanation
Indices: 10156016--10156225 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
10156006 ATTTGAATGA
*
10156016 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
10156056 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
10156096 TAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
10156135 TATCCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTACTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGTGATTT
* * * * * * *
10156175 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
10156215 TATCC-GGCTAA
1 TATCCGGGCTAA
10156226 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 38 0.25
40 111 0.74
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:10156153 original size:79 final size:80
Alignment explanation
Indices: 10156019--10156225 Score: 233
Period size: 79 Copynumber: 2.6 Consensus size: 80
10156009 TGAATGATAT
* * * * *
10156019 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
* *
10156084 TGCT-AGTGATTTTA-
66 TG-TGAGTGACTATAC
*
10156098 TCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
* *
10156162 GTGTGAGTTACTATAC
65 ATGTGAGTGACTATAC
* * ** *
10156178 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
10156226 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 71 0.66
80 36 0.33
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
TGTGAGTGACTATAC
Found at i:10158916 original size:18 final size:18
Alignment explanation
Indices: 10158893--10158931 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
10158883 ATTTTATGCT
*
10158893 TATAATATAATAATATAA
1 TATAATATAATAACATAA
10158911 TATAATATAATAACATAA
1 TATAATATAATAACATAA
10158929 TAT
1 TAT
10158932 CTTTTACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAATATAATAACATAA
Found at i:10158931 original size:13 final size:14
Alignment explanation
Indices: 10158893--10158931 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
10158883 ATTTTATGCT
10158893 TATAATATAATA-A
1 TATAATATAATATA
10158906 TATAATATAATATA
1 TATAATATAATATA
*
10158920 -ATAACATAATAT
1 TATAATATAATAT
10158932 CTTTTACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
TATAATATAATATA
Found at i:10159063 original size:5 final size:5
Alignment explanation
Indices: 10159055--10159095 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
10159045 TATTTAATTG
*
10159055 ATATA ATATA ATATA ATAATA ATATA ATAATA AAATA ATAT
1 ATATA ATATA ATATA AT-ATA ATATA AT-ATA ATATA ATAT
10159096 TTACTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:10159075 original size:8 final size:8
Alignment explanation
Indices: 10159057--10159095 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
10159047 TTTAATTGAT
10159057 ATAATATA
1 ATAATATA
10159065 AT-ATAATA
1 ATAAT-ATA
10159073 ATAATATA
1 ATAATATA
*
10159081 ATAATAAA
1 ATAATATA
10159089 ATAATAT
1 ATAATAT
10159096 TTACTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 2 0.07
8 23 0.85
9 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAATATA
Found at i:10159078 original size:11 final size:11
Alignment explanation
Indices: 10159055--10159094 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
10159045 TATTTAATTG
10159055 ATATAAT-ATA
1 ATATAATAATA
10159065 ATATAATAATA
1 ATATAATAATA
10159076 ATATAATAATA
1 ATATAATAATA
*
10159087 AAATAATA
1 ATATAATA
10159095 TTTACTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAATAATA
Found at i:10162301 original size:27 final size:27
Alignment explanation
Indices: 10162253--10162409 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
10162243 GCGAGGCTGC
* *
10162253 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
10162280 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
10162306 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
10162333 CA-ATAATCGTGGCATAGCCACCAG--A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
10162358 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
10162385 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
10162410 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.04
26 42 0.37
27 64 0.57
28 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:10162351 original size:26 final size:26
Alignment explanation
Indices: 10162271--10162409 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 26
10162261 GTGACGAAGT
*
10162271 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGAT-CAGATAATGTGGCAGAGC
*
10162298 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATA-ATGTGGCAGAGC
*
10162325 CACCAGATCA-ATAATCGTGGCATAGC
1 CACCAGATCAGATAAT-GTGGCAGAGC
10162351 CACCAGA-CAGATATATGTGGCAGAGC
1 CACCAGATCAGATA-ATGTGGCAGAGC
*
10162377 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAA-TGTGGCAGAGC
10162404 CACCAG
1 CACCAG
10162410 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
25 4 0.04
26 45 0.45
27 51 0.51
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (26 bp):
CACCAGATCAGATAATGTGGCAGAGC
Found at i:10162577 original size:28 final size:26
Alignment explanation
Indices: 10162515--10162577 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
10162505 AAAGTAACGC
** * *
10162515 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
10162541 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
10162569 TAGGGGTAT
1 TAGGGGTAT
10162578 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:10169280 original size:27 final size:27
Alignment explanation
Indices: 10169232--10169389 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
10169222 GCGAGGCTGC
* *
10169232 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
10169259 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
10169285 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
10169312 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
10169339 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
10169366 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
10169390 AGACGCTTCC
Statistics
Matches: 116, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:10169325 original size:54 final size:54
Alignment explanation
Indices: 10169250--10169389 Score: 246
Period size: 54 Copynumber: 2.6 Consensus size: 54
10169240 GTGACGAAGT
*
10169250 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
10169304 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
10169358 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
10169390 AGACGCTTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:10171153 original size:5 final size:5
Alignment explanation
Indices: 10171143--10171167 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10171133 AATAAAAATG
10171143 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
10171168 GGATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:10171268 original size:3 final size:3
Alignment explanation
Indices: 10171262--10171380 Score: 104
Period size: 3 Copynumber: 39.3 Consensus size: 3
10171252 TAATATGATG
* *
10171262 ATA ATA ATA GTA ATA ATCCA ATA ATA ATA ATA A-A GTGGA A-A ATA ATA
1 ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA ATA AT--A ATA ATA ATA
* * *
10171309 ATA ATA AT- ATA TTA ATA AGA ATA ATA ATA GATTA ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA
10171355 AT- ATA A-A ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10171381 GGAATATCAA
Statistics
Matches: 95, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
2 9 0.09
3 78 0.82
4 2 0.02
5 6 0.06
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10171331 original size:20 final size:20
Alignment explanation
Indices: 10171302--10171376 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
10171292 TAAAGTGGAA
10171302 AATAATAATAATAATATATT
1 AATAATAATAATAATATATT
* *
10171322 AATAAGAATAATAATAGATT
1 AATAATAATAATAATATATT
* *
10171342 AATAATAAAAATAATATA-A
1 AATAATAATAATAATATATT
10171361 AATAATAATAATAATA
1 AATAATAATAATAATA
10171377 ATAAGGAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 15 0.31
20 33 0.69
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
AATAATAATAATAATATATT
Found at i:10172525 original size:18 final size:18
Alignment explanation
Indices: 10172492--10172526 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10172482 TAGGGTTTAG
*
10172492 TTGGGTTTGGATTTGGCT
1 TTGGGTTTGGAATTGGCT
*
10172510 TTGGGTTTGTAATTGGC
1 TTGGGTTTGGAATTGGC
10172527 AAAATTGGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.37, T:0.49
Consensus pattern (18 bp):
TTGGGTTTGGAATTGGCT
Found at i:10174222 original size:44 final size:42
Alignment explanation
Indices: 10174155--10174298 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 42
10174145 TTTCGATGTG
* * *
10174155 TGATTTC-GTGTAAGATCACGTCTGCGACGTTGGCATCGATT
1 TGATTTCAGTGTAAGACCATGTCTGAGACGTTGGCATCGATT
* *
10174196 TGAGATTT-ATGTGTAAGACCATGTCTGAGACATCGGCATCGTATT
1 T--GATTTCA-GTGTAAGACCATGTCTGAGACGTTGGCATCG-ATT
* *
10174241 TGATTTCA-TGTAAGACCCTGTCTGGGACAG-TGGCATCGATATT
1 TGATTTCAGTGTAAGACCATGTCTGAGAC-GTTGGCATCG--ATT
*
10174284 TGATTACA-TGTAAGA
1 TGATTTCAGTGTAAGA
10174299 TCACATCTGG
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 25 0.29
43 28 0.33
44 27 0.32
45 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATTTCAGTGTAAGACCATGTCTGAGACGTTGGCATCGATT
Found at i:10174263 original size:42 final size:43
Alignment explanation
Indices: 10174207--10174298 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 43
10174197 GAGATTTATG
*
10174207 TGTAAGACCATGTCTGAGACA-TCGGCATCG-TATTTGATTTCA
1 TGTAAGACCATGTCTGAGACAGT-GGCATCGATATTTGATTACA
* *
10174249 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGATTACA
10174292 TGTAAGA
1 TGTAAGA
10174299 TCACATCTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 26 0.58
43 19 0.42
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGATTACA
Found at i:10174308 original size:43 final size:42
Alignment explanation
Indices: 10174230--10174310 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
10174220 CTGAGACATC
* * *
10174230 GGCATCGTATTTGATTTCATGTAAGACCCTGTCTGGGACAGT
1 GGCATCGTATTTGATTACATGTAAGACACTATCTGGGACAGT
10174272 GGCATCGATATTTGATTACATGTAAGATCAC-ATCTGGGA
1 GGCATCG-TATTTGATTACATGTAAGA-CACTATCTGGGA
10174311 TGTTGGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 7 0.21
43 25 0.74
44 2 0.06
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
GGCATCGTATTTGATTACATGTAAGACACTATCTGGGACAGT
Found at i:10181236 original size:86 final size:85
Alignment explanation
Indices: 10181091--10181269 Score: 286
Period size: 86 Copynumber: 2.1 Consensus size: 85
10181081 CACACGGGCG
* * * * *
10181091 TGTGGGCCCATACGGGTGAACCACACGGGCGTGTGGGAATTTGGTCCAGGCCGTGTGATCTACCT
1 TGTGGGCCCATACAGGTGAACCACACGGGCGTGTAGAAATTTGGGCCAGGCCGTGTGATCCACC-
10181156 AGCCAAGGCTGATTTGGGCCA
65 AGCCAAGGCTGATTTGGGCCA
*
10181177 TGTGGGCCCATACAGGTGAACCACACGGGCGTGTAGAAATTTGGGCCAGGCCGTGTGATCCACCC
1 TGTGGGCCCATACAGGTGAACCACACGGGCGTGTAGAAATTTGGGCCAGGCCGTGTGATCCACCA
*
10181242 GGCAAGGCTGATTTGGGCCA
66 GCCAAGGCTGATTTGGGCCA
10181262 TGTGGGCC
1 TGTGGGCC
10181270 ACACGGGCAT
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
85 27 0.31
86 59 0.69
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (85 bp):
TGTGGGCCCATACAGGTGAACCACACGGGCGTGTAGAAATTTGGGCCAGGCCGTGTGATCCACCA
GCCAAGGCTGATTTGGGCCA
Found at i:10184958 original size:7 final size:7
Alignment explanation
Indices: 10184946--10184973 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
10184936 CATCCCCATA
10184946 CATTTTC
1 CATTTTC
10184953 CATTTTC
1 CATTTTC
10184960 CATTTTC
1 CATTTTC
10184967 CATTTTC
1 CATTTTC
10184974 ATCACTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (7 bp):
CATTTTC
Found at i:10187406 original size:13 final size:13
Alignment explanation
Indices: 10187392--10187455 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
10187382 TAAACTAAAT
10187392 TTTTCAAAAGCA-
1 TTTTCAAAAGCAC
10187404 TTTCTCAAAAGCAC
1 TTT-TCAAAAGCAC
* *
10187418 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
* *
10187431 TTCTCAAAAACAC
1 TTTTCAAAAGCAC
10187444 TTTTCAAAAGCA
1 TTTTCAAAAGCA
10187456 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.30
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:10187421 original size:26 final size:26
Alignment explanation
Indices: 10187392--10187457 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
10187382 TAAACTAAAT
*
10187392 TTTTCAAAAGCATTTCTCAAAAGCAC
1 TTTTCAAAAGCATTTCTCAAAAACAC
* * *
10187418 TTTTCCACAGCACTTCTCAAAAACAC
1 TTTTCAAAAGCATTTCTCAAAAACAC
10187444 TTTTCAAAAGCATT
1 TTTTCAAAAGCATT
10187458 GCCAAACTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTTTCAAAAGCATTTCTCAAAAACAC
Found at i:10188765 original size:43 final size:43
Alignment explanation
Indices: 10188701--10188787 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
10188691 GTAATCCCGC
*
10188701 ATTGTCTAGGAACAATCTACAAATAGATTACAAGTCTATATAT
1 ATTGTCTAGGAACAATATACAAATAGATTACAAGTCTATATAT
*
10188744 ATTGTCTAGGAACAATATACAAATAGGTTACAAGTCTATATAT
1 ATTGTCTAGGAACAATATACAAATAGATTACAAGTCTATATAT
10188787 A
1 A
10188788 CACATATCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (43 bp):
ATTGTCTAGGAACAATATACAAATAGATTACAAGTCTATATAT
Found at i:10191767 original size:26 final size:26
Alignment explanation
Indices: 10191734--10191786 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10191724 TTAATTACTT
10191734 AACTTAGTTAATTTAATCATGTTTTA
1 AACTTAGTTAATTTAATCATGTTTTA
10191760 AACTTAGTTAATTTAATCATGTTTTA
1 AACTTAGTTAATTTAATCATGTTTTA
10191786 A
1 A
10191787 TTAACTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (26 bp):
AACTTAGTTAATTTAATCATGTTTTA
Found at i:10199589 original size:23 final size:23
Alignment explanation
Indices: 10199563--10199607 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10199553 TAGGTATGTG
*
10199563 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
10199586 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
10199608 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:10208887 original size:46 final size:46
Alignment explanation
Indices: 10208781--10209101 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
10208771 TTTGACATGA
* * * * ** * * *
10208781 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
* ** * *
10208828 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
10208874 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
10208920 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10208966 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
10209012 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
10209058 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10209102 AGAGCACACT
Statistics
Matches: 250, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
46 220 0.88
47 30 0.12
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:10211256 original size:18 final size:20
Alignment explanation
Indices: 10211241--10211277 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10211231 TAATAATAAA
*
10211241 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
10211261 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
10211278 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:10212881 original size:16 final size:16
Alignment explanation
Indices: 10212860--10212893 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10212850 CTCTGTGTTC
10212860 TTTA-TTTTATTTTATT
1 TTTATTTTTA-TTTATT
10212876 TTTATTTTTATTTATT
1 TTTATTTTTATTTATT
10212892 TT
1 TT
10212894 AACACAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTATTTTTATTTATT
Found at i:10216031 original size:52 final size:52
Alignment explanation
Indices: 10215933--10216086 Score: 188
Period size: 52 Copynumber: 2.9 Consensus size: 52
10215923 TGGACAATGG
10215933 AAACAAGTGATAAGTGATATCCGTA-AAGACCATAGCTGGGCTATGGCATCAGA
1 AAACAAGTGATAAGTG--ATCCGTATAAGACCATAGCTGGGCTATGGCATCAGA
*
10215986 AAACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGG-TAATGGCATCGGA
1 AAACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGGCT-ATGGCATCAGA
* * * * * *
10216038 GAA-AAGTGATAAGTGCTCCTGTGTAAGACCATATCTGAGATATGGCATC
1 AAACAAGTGATAAGTGATCC-GTATAAGACCATAGCTGGGCTATGGCATC
10216087 GGTATGATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
51 23 0.25
52 51 0.56
53 17 0.19
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (52 bp):
AAACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCAGA
Found at i:10223271 original size:32 final size:32
Alignment explanation
Indices: 10223207--10223271 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
10223197 GTTAATTGTA
* *
10223207 TTTATTGTCATTTTAAATGTCGGTATAATTTT
1 TTTATTGTCATTTTAAAAGTCGATATAATTTT
* *
10223239 TTTA-TGTTATTTTAAAAGTTGATATAATTTT
1 TTTATTGTCATTTTAAAAGTCGATATAATTTT
10223270 TT
1 TT
10223272 AACTCATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (32 bp):
TTTATTGTCATTTTAAAAGTCGATATAATTTT
Found at i:10223531 original size:21 final size:20
Alignment explanation
Indices: 10223486--10223534 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
10223476 TTTTTACTTC
*
10223486 AATAAATATTAAAAATAAAT
1 AATAAATAATAAAAATAAAT
*
10223506 TATAAATCAATAAAAATATAA-
1 AATAAAT-AATAAAAATA-AAT
10223527 AATAAATA
1 AATAAATA
10223535 CAAACATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAATAATAAAAATAAAT
Found at i:10223858 original size:3 final size:3
Alignment explanation
Indices: 10223852--10223889 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10223842 CCCGCCGCCC
10223852 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
10223890 CATGACAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:10230504 original size:24 final size:24
Alignment explanation
Indices: 10230460--10230511 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
10230450 TTTCTAGATG
* *
10230460 ATTTAATATTTATTAATATAATAT
1 ATTTAACATTTATTAACATAATAT
* *
10230484 ATTTAACATTTATTAGCATAATTT
1 ATTTAACATTTATTAACATAATAT
10230508 ATTT
1 ATTT
10230512 GTGCTTATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTAACATTTATTAACATAATAT
Found at i:10237798 original size:44 final size:44
Alignment explanation
Indices: 10237745--10237831 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
10237735 GGATGTAAGC
10237745 CAGTGTAAGAC-ATGA-CT-GGAACAT-GCATCGGCTACGAGATATGT
1 CAGTGTAAGACTAT-ACCTAGG-ACATGGCATCGG-TACG-GATATGT
10237789 CAGTGTAAGACTATACCTAGGACATGGCATCGGTACGGATATG
1 CAGTGTAAGACTATACCTAGGACATGGCATCGGTACGGATATG
10237832 CGAGAGCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
44 18 0.46
45 12 0.31
46 9 0.23
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (44 bp):
CAGTGTAAGACTATACCTAGGACATGGCATCGGTACGGATATGT
Found at i:10239010 original size:21 final size:21
Alignment explanation
Indices: 10238984--10239033 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
10238974 TGTGGGACAC
10238984 GGGCGTGTTACCCTTCAACAA
1 GGGCGTGTTACCCTTCAACAA
* *
10239005 GGGCGTGTTACCCTTCCACAC
1 GGGCGTGTTACCCTTCAACAA
10239026 GGGCGTGT
1 GGGCGTGT
10239034 GCCCTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (21 bp):
GGGCGTGTTACCCTTCAACAA
Found at i:10240457 original size:25 final size:25
Alignment explanation
Indices: 10240384--10240473 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 25
10240374 TTCCAAGCCA
**
10240384 AATAACAGAAAGCTCATGTGAGCTT
1 AATAACAGAAAGCTCATAAGAGCTT
* * * * ** *
10240409 -GTAATAGGAAGCTTATTCGGGCTT
1 AATAACAGAAAGCTCATAAGAGCTT
10240433 AATAACAGAAAGCTCATAAGAGCTT
1 AATAACAGAAAGCTCATAAGAGCTT
*
10240458 AA-ATCAGAAAGCTCAT
1 AATAACAGAAAGCTCAT
10240474 GTGAACTTAA
Statistics
Matches: 49, Mismatches: 15, Indels: 3
0.73 0.22 0.04
Matches are distributed among these distances:
24 30 0.61
25 19 0.39
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (25 bp):
AATAACAGAAAGCTCATAAGAGCTT
Found at i:10240482 original size:24 final size:24
Alignment explanation
Indices: 10240438--10240483 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10240428 GGCTTAATAA
*
10240438 CAGAAAGCTCATAAGAGCTTAAAT
1 CAGAAAGCTCATAAGAACTTAAAT
**
10240462 CAGAAAGCTCATGTGAACTTAA
1 CAGAAAGCTCATAAGAACTTAA
10240484 CGGGTAACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (24 bp):
CAGAAAGCTCATAAGAACTTAAAT
Found at i:10241450 original size:53 final size:52
Alignment explanation
Indices: 10241370--10241476 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 52
10241360 AAATTTTTCT
10241370 ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
1 ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAA-TGGGTAAGTA
*
10241423 ATGGAAACCCTAGTTAAGATAAAGAACTTCAAGCAAGCTTAATGGGTAAGTA
1 ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATGGGTAAGTA
10241475 AT
1 AT
10241477 CATGTCCCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 12 0.23
53 41 0.77
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (52 bp):
ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATGGGTAAGTA
Found at i:10241902 original size:21 final size:21
Alignment explanation
Indices: 10241873--10241916 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10241863 CTTTTGCCTA
* * *
10241873 GAATGTGAATTTGATTGAATT
1 GAATATGAATTTCATTAAATT
10241894 GAATATGAATTTCATTAAATT
1 GAATATGAATTTCATTAAATT
10241915 GA
1 GA
10241917 GTTAAATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (21 bp):
GAATATGAATTTCATTAAATT
Found at i:10242603 original size:25 final size:25
Alignment explanation
Indices: 10242488--10242606 Score: 107
Period size: 25 Copynumber: 4.8 Consensus size: 25
10242478 AGGCTCTTCA
* *
10242488 GAGCTACCCGTTAT-TGGCTCACAC
1 GAGCTTCCCGTTATATGGCTCACAT
* * **
10242512 GAGCTTCCTG-GATATGGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
** * *
10242536 GAGCTTCCCGTTATATATCCCAGAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *
10242561 AAGCTTCCCATTACATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
10242586 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGTTATATGGCTC
10242607 GAGAGAGTGC
Statistics
Matches: 70, Mismatches: 23, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
23 2 0.03
24 24 0.34
25 44 0.63
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:10242908 original size:13 final size:13
Alignment explanation
Indices: 10242890--10242915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10242880 ATTGGCCAAA
10242890 ATGTTTTGGATGC
1 ATGTTTTGGATGC
10242903 ATGTTTTGGATGC
1 ATGTTTTGGATGC
10242916 TTACTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (13 bp):
ATGTTTTGGATGC
Found at i:10246219 original size:30 final size:30
Alignment explanation
Indices: 10246185--10246317 Score: 167
Period size: 30 Copynumber: 4.4 Consensus size: 30
10246175 AATCTTAGCA
10246185 TTTTCCACCACCAACTCCACTAGCCACACT
1 TTTTCCACCACCAACTCCACTAGCCACACT
* *
10246215 TTTTCTACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACT
*
10246245 TTTTCCACCACCAAATCCACTAGCCACACT
1 TTTTCCACCACCAACTCCACTAGCCACACT
** ** * *
10246275 TGCTCCATTACCCACTCCACTAACCACACT
1 TTTTCCACCACCAACTCCACTAGCCACACT
**
10246305 TGCTCCACCACCA
1 TTTTCCACCACCA
10246318 CTTGTACCTA
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 88 1.00
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.23
Consensus pattern (30 bp):
TTTTCCACCACCAACTCCACTAGCCACACT
Found at i:10246850 original size:20 final size:20
Alignment explanation
Indices: 10246809--10246853 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
10246799 TTTTTGTTAT
*
10246809 TATTATATTTCTTAATATTA
1 TATTATATTTCTTAATAATA
*
10246829 TATTATATATTCTT-TTAATA
1 TATTATAT-TTCTTAATAATA
10246849 TATTA
1 TATTA
10246854 GGTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATATTTCTTAATAATA
Found at i:10246905 original size:24 final size:25
Alignment explanation
Indices: 10246847--10246933 Score: 83
Period size: 24 Copynumber: 3.6 Consensus size: 25
10246837 ATTCTTTTAA
* * *
10246847 TATATTAGGTATAT-T-TTAAATTC
1 TATATTATGTATATATATTTAATAC
*
10246870 TATATTACGTATATATATTT-ATAC
1 TATATTATGTATATATATTTAATAC
* * *
10246894 TATTTTATGTATATATCTTTAATAT
1 TATATTATGTATATATATTTAATAC
10246919 TATATTAT-TATATAT
1 TATATTATGTATATAT
10246934 TTTTTTTTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
23 13 0.25
24 28 0.53
25 12 0.23
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (25 bp):
TATATTATGTATATATATTTAATAC
Found at i:10246906 original size:22 final size:22
Alignment explanation
Indices: 10246806--10246935 Score: 63
Period size: 24 Copynumber: 5.7 Consensus size: 22
10246796 CTTTTTTTGT
*
10246806 TATTATTATATTTCTTAATA-T-
1 TATTATTATATAT-TTAATACTA
** *
10246827 TA-TATTATATATTCTTTTAATA
1 TATTATTATATATT-TAATACTA
* *
10246849 TATTAGGTATAT-TTTAAATTCTA
1 TATTA-TTATATATTT-AATACTA
10246872 TATTACGTATATATATTT-ATACTA
1 TATTA--T-TATATATTTAATACTA
* *
10246896 TTTTATGTATATATCTTTAATATTA
1 TATTAT-TATATA--TTTAATACTA
10246921 TATTATTATATATTT
1 TATTATTATATATTT
10246936 TTTTTTCTAC
Statistics
Matches: 83, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
19 1 0.01
20 12 0.14
21 3 0.04
22 13 0.16
23 12 0.14
24 24 0.29
25 15 0.18
26 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (22 bp):
TATTATTATATATTTAATACTA
Found at i:10247002 original size:25 final size:25
Alignment explanation
Indices: 10246970--10247018 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10246960 ATATACCTTA
**
10246970 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
10246995 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
10247019 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:10247197 original size:16 final size:16
Alignment explanation
Indices: 10247173--10247232 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
10247163 TAATTATTAT
* *
10247173 TATTCTAATATTTTGA
1 TATTTTAATATTTTTA
10247189 TATTTTAATATTTTTA
1 TATTTTAATATTTTTA
10247205 TATTTT-ATATTTTATA
1 TATTTTAATATTTT-TA
*
10247221 TATTTTATTATT
1 TATTTTAATATT
10247233 CACATCATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
15 7 0.18
16 28 0.72
17 4 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTTTAATATTTTTA
Found at i:10247212 original size:7 final size:7
Alignment explanation
Indices: 10247180--10247221 Score: 57
Period size: 7 Copynumber: 5.6 Consensus size: 7
10247170 TATTATTCTA
10247180 ATATTTT
1 ATATTTT
10247187 GATATTTT
1 -ATATTTT
10247195 AATATTTTT
1 -ATA-TTTT
10247204 ATATTTT
1 ATATTTT
10247211 ATATTTT
1 ATATTTT
10247218 ATAT
1 ATAT
10247222 ATTTTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 15 0.47
8 13 0.41
9 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (7 bp):
ATATTTT
Found at i:10259489 original size:89 final size:89
Alignment explanation
Indices: 10259213--10259770 Score: 918
Period size: 89 Copynumber: 6.2 Consensus size: 89
10259203 CGCTGAGGTA
*
10259213 TTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
*
10259278 CGCTGAGGTATTTTCAATTTATGT
66 CGCTGAGGTATTTTCAATTTCTGT
*
10259302 TTTTCAATTTTTGCTCTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTCAATTTCTGCTCTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
* *
10259367 ACGCTGAGGTATTTTCGATTTCTGC
65 ACGCTGAGGTATTTTCAATTTCTGT
* * * * *
10259392 TTTCCAATTTCTGCTCTTCAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* *
10259457 CGCTGAGGTAATTTCAATTTATGT
66 CGCTGAGGTATTTTCAATTTCTGT
10259481 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
10259546 CGCTGAGGTATTTTCAATTTCTGT
66 CGCTGAGGTATTTTCAATTTCTGT
*
10259570 TTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* **
10259635 CGCTGAGGTATTTTCGATTTCTAC
66 CGCTGAGGTATTTTCAATTTCTGT
*
10259659 TTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
*
10259724 CGCTGAGGTATTTTCAATTTTTGTT
66 CGCTGAGGTATTTTCAATTTCTG-T
* *
10259749 TTTTCAATTTATGCTTTTCAAA
1 TTTTCAATTTCTGCTCTTCAAA
10259771 TTCTGCTTTT
Statistics
Matches: 434, Mismatches: 33, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
89 331 0.76
90 103 0.24
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (89 bp):
TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
CGCTGAGGTATTTTCAATTTCTGT
Found at i:10259708 original size:267 final size:268
Alignment explanation
Indices: 10259213--10259908 Score: 1006
Period size: 267 Copynumber: 2.5 Consensus size: 268
10259203 CGCTGAGGTA
*
10259213 TTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTATGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
*
10259278 CGCTGAGGTATTTTCAATTTATGTTTTTCAATTTTTGCTCTTCAAAAAAAATCAACTCATATTGC
66 CGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTC-AAAAAAATCAACTCATATTGC
*
10259343 GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTC
130 GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTACTTTCCAATTTCTGCTC
* *
10259408 TTCAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
195 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
10259473 ATTTATG-T
260 ATTTATGTT
*
10259481 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTATGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
10259546 CGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCG
66 CGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCG
10259611 AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTACTTTCCAATTTCTGCTCT
131 AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTACTTTCCAATTTCTGCTCT
* * *
10259676 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
196 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
*
10259741 TTTTTGTT
261 TTTATGTT
* * * *
10259749 TTTTCAATTTATGCTTTTCAAATTCTGCTTTTTAAAAAATAAACTCATATTGCTAGATGTGAGTT
1 TTTTCAATTTATGC---TC----T-T-C----AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
** * **
10259814 GAGCCTC-GGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAAATTAAG-T-TTCAAAAA
53 GAGCCTCAGGG-CAC--GCT-GAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAAA
* *
10259875 AACCAACTCATATGGCGAGAGGTGAGTTGAGCCT
114 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
10259909 TAGCTCACGT
Statistics
Matches: 389, Mismatches: 21, Indels: 23
0.90 0.05 0.05
Matches are distributed among these distances:
267 151 0.39
268 120 0.31
271 2 0.01
275 1 0.00
276 1 0.00
277 1 0.00
280 3 0.01
281 79 0.20
282 2 0.01
283 29 0.07
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (268 bp):
TTTTCAATTTATGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
CGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTACTTTCCAATTTCTGCTCT
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTTATGTT
Found at i:10259766 original size:15 final size:15
Alignment explanation
Indices: 10259734--10259781 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
10259724 CGCTGAGGTA
* *
10259734 TTTTCAATTTTTGTT
1 TTTTCAATTTATGCT
10259749 TTTTCAATTTATGC-
1 TTTTCAATTTATGCT
* *
10259763 TTTTCAAATTCTGCT
1 TTTTCAATTTATGCT
10259778 TTTT
1 TTTT
10259782 AAAAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.17, C:0.12, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTCAATTTATGCT
Found at i:10259884 original size:192 final size:193
Alignment explanation
Indices: 10259556--10259908 Score: 455
Period size: 192 Copynumber: 1.8 Consensus size: 193
10259546 CGCTGAGGTA
* * * * *
10259556 TTTTCAATTTCTGTTTTTCAATTTTTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTATGCTTTTCAAATTCTGCTCTTCAAAAAAATAAACTCATATTGCGAGAGGTGAGT
* ** * ** *
10259621 TGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTACTTTCCAATTTCTGCTCTTCAAAAAAAT
66 TGAGCCTCAGGGCACGCTGAGGTATTTTCAAAATCTACTTTCCAAATTAAGCTCTTCAAAAAAAC
*
10259686 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTT
131 CAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTT
** * *
10259749 TTTTCAATTTATGCTTTTCAAATTCTGCT-TTTTAAAAAATAAACTCATATTGCTAGATGTGAGT
1 TTTTCAATTTATGCTTTTCAAATTCTGCTCTTCAAAAAAATAAACTCATATTGCGAGAGGTGAGT
** *
10259813 TGAGCCTC-GGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAAATTAAG-T-TTCAAAA
66 TGAGCCTCAGGG-CAC--GCT-GAGGTATTTTCAAAATCTACTTTCCAAATTAAGCTCTTCAAAA
10259874 AAACCAACTCATATGGCGAGAGGTGAGTTGAGCCT
127 AAACCAACTCATATGGCGAGAGGTGAGTTGAGCCT
10259909 TAGCTCACGT
Statistics
Matches: 136, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
191 3 0.02
192 81 0.60
193 27 0.20
194 25 0.18
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (193 bp):
TTTTCAATTTATGCTTTTCAAATTCTGCTCTTCAAAAAAATAAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGGCACGCTGAGGTATTTTCAAAATCTACTTTCCAAATTAAGCTCTTCAAAAAAAC
CAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTT
Found at i:10260683 original size:30 final size:30
Alignment explanation
Indices: 10260642--10260738 Score: 158
Period size: 30 Copynumber: 3.2 Consensus size: 30
10260632 TAAATCTTAG
*
10260642 CCTTTTCCACCACCAACTCCACTAGTCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
10260672 CCTTCTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* *
10260702 TCTTTTCCACCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACA
10260732 CCTTTTC
1 CCTTTTC
10260739 GTTACACGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.24, C:0.48, G:0.03, T:0.25
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:10261012 original size:30 final size:30
Alignment explanation
Indices: 10260971--10261164 Score: 232
Period size: 30 Copynumber: 6.5 Consensus size: 30
10260961 TAAATCTTAG
* *
10260971 CCTTTTCCACCACCAACTCCACTAGTCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
10261001 CCTTCTCCACCACCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
* * * *
10261031 TCTTTTCCACCACCAACTCCACTAACCACT
1 CCTTCTCCACCACCAACTCCACTAGCCACA
*
10261061 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
* *
10261091 CCTT-TTCACCACCAAATCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
** * *
10261120 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-CTCCACCACCAACTCCACTAGCCACA
10261150 -CTTGCTCCACCACCA
1 CCTT-CTCCACCACCA
10261165 CTTGTACCTA
Statistics
Matches: 142, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
28 3 0.02
29 23 0.16
30 116 0.82
ACGTcount: A:0.27, C:0.48, G:0.03, T:0.22
Consensus pattern (30 bp):
CCTTCTCCACCACCAACTCCACTAGCCACA
Found at i:10261690 original size:23 final size:23
Alignment explanation
Indices: 10261653--10261782 Score: 72
Period size: 25 Copynumber: 5.5 Consensus size: 23
10261643 CTTTTTTTGT
10261653 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
10261676 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
10261698 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
10261721 TATTACGTATATATAT-TTTATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
10261746 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
10261771 TATTATTTATAT
1 TATTATATATAT
10261783 ATATATTTTT
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 4 0.05
25 28 0.35
26 4 0.05
27 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:10261758 original size:27 final size:27
Alignment explanation
Indices: 10261728--10261863 Score: 86
Period size: 25 Copynumber: 5.2 Consensus size: 27
10261718 CTATATTACG
*
10261728 TATATATATTTTATACTATTTTATG--
1 TATATATATTTTATACTATATTATGTA
* * * *
10261753 TATATATCTTTAATATTATATTATTTA
1 TATATATATTTTATACTATATTATGTA
* * *
10261780 TATATATATTTTTCTAC-ATGTTATCTTA
1 TATATATA-TTTTATACTATATTAT-GTA
* *
10261808 TGTATATATCTTA-ACTATATTATGTA
1 TATATATATTTTATACTATATTATGTA
* * *
10261834 TGTAT-T-TTTAACACTATATTATGTA
1 TATATATATTTTATACTATATTATGTA
*
10261859 CATAT
1 TATAT
10261864 TTTTAATATT
Statistics
Matches: 86, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
24 3 0.03
25 37 0.43
26 9 0.10
27 22 0.26
28 15 0.17
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.55
Consensus pattern (27 bp):
TATATATATTTTATACTATATTATGTA
Done.