Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002352.1 Hibiscus syriacus cultivar Beakdansim tig00004797_pilon, 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: 2012169
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 10
Found at i:1279912 original size:19 final size:21
Alignment explanation
Indices: 1279888--1279929 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1279878 AATCAGATTG
1279888 CCCA-GGGGG-ACAGATTCCC
1 CCCAGGGGGGTACAGATTCCC
*
1279907 CCCAGGGGGGTACCGATTCCC
1 CCCAGGGGGGTACAGATTCCC
1279928 CC
1 CC
1279930 TGTCTAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 11 0.55
ACGTcount: A:0.17, C:0.40, G:0.31, T:0.12
Consensus pattern (21 bp):
CCCAGGGGGGTACAGATTCCC
Found at i:1279974 original size:28 final size:28
Alignment explanation
Indices: 1279921--1279981 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 28
1279911 GGGGGGTACC
*
1279921 GATTCCCCCTGTCTAATGGTCAAAAACA
1 GATTCCCCCTGTCTAACGGTCAAAAACA
1279949 GATTCCCCCTTGTCTAACGGTCAAAAACA
1 GATTCCCCC-TGTCTAACGGTCAAAAACA
1279978 GATT
1 GATT
1279982 GCACTTAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (28 bp):
GATTCCCCCTGTCTAACGGTCAAAAACA
Found at i:1281353 original size:3 final size:3
Alignment explanation
Indices: 1281332--1281369 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
1281322 TGAAGAAAGG
* *
1281332 GAA G-A GAA GAA AAA TAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1281370 TGAGGACGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:1285029 original size:14 final size:14
Alignment explanation
Indices: 1285010--1285037 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1285000 GGGTTTACTG
1285010 CTATCATCTCACTC
1 CTATCATCTCACTC
1285024 CTATCATCTCACTC
1 CTATCATCTCACTC
1285038 GAGATTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (14 bp):
CTATCATCTCACTC
Found at i:1287133 original size:79 final size:79
Alignment explanation
Indices: 1286997--1287430 Score: 676
Period size: 79 Copynumber: 5.5 Consensus size: 79
1286987 GAATTTTATT
* * *
1286997 TATGGCATCCTTTTATGCCAATAATGCACTCATATGCCTTATTCTTTTATG-TCGATAATGCACC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCT-GATAATGCACC
* *
1287061 CATATGCATTTCATC
65 CATATGCATTTAAGC
* *
1287076 TATGGCATCATTTCATGCCAATAAAGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCC
*
1287141 ATATGCATTTAAGT
66 ATATGCATTTAAGC
* *
1287155 TATGTCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCC
1287220 ATATGCATTTAAGC
66 ATATGCATTTAAGC
* * * *
1287234 TATTGCATCATTTCATTCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCC
1287299 ATATGCATTTAAGC
66 ATATGCATTTAAGC
* *
1287313 TATTGCATCCTTTCATTCCAATAATGCACCCATATGCATTATTCTTTTATG-TCGATAATGCA-C
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCT-GATAATGCACC
*
1287376 CATATGCATTTTAGC
65 CATATGCATTTAAGC
1287391 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
1287431 TCAGCTATGG
Statistics
Matches: 331, Mismatches: 22, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
78 53 0.16
79 277 0.84
80 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCC
ATATGCATTTAAGC
Found at i:1287144 original size:34 final size:34
Alignment explanation
Indices: 1287090--1287385 Score: 207
Period size: 34 Copynumber: 7.8 Consensus size: 34
1287080 GCATCATTTC
* *
1287090 ATGCCAATAAAGCACCCATATGCATTATTCTTTT
1 ATGCCGATAATGCACCCATATGCATTATTCTTTT
*
1287124 ATGCTGATAATGCACCCATATGCATTTAAGTTATGTCATCCTTT
1 ATGCCGATAATGCACCCATATGC-----A-TTAT-TC-T--TTT
*
1287168 CATGCCAATAATGCACCCATATGCATTATTCTTTT
1 -ATGCCGATAATGCACCCATATGCATTATTCTTTT
1287203 ATGCCGATAATGCACCCATATGCATTTAAGCTATTGCATCATTT
1 ATGCCGATAATGCACCCATATGCA--T----TATT-C-T--TTT
* *
1287247 CATTCCAATAATGCACCCATATGCATTATTCTTTT
1 -ATGCCGATAATGCACCCATATGCATTATTCTTTT
1287282 ATGCCGATAATGCACCCATATGCATTTAAGCTATTGCATCCTTT
1 ATGCCGATAATGCACCCATATGCA--T----TATT-C-T--TTT
* *
1287326 CATTCCAATAATGCACCCATATGCATTATTCTTTT
1 -ATGCCGATAATGCACCCATATGCATTATTCTTTT
*
1287361 ATGTCGATAATGCA-CCATATGCATT
1 ATGCCGATAATGCACCCATATGCATT
1287386 TTAGCTATGG
Statistics
Matches: 214, Mismatches: 15, Indels: 67
0.72 0.05 0.23
Matches are distributed among these distances:
33 11 0.05
34 76 0.36
35 9 0.04
36 2 0.01
37 3 0.01
38 4 0.02
39 13 0.06
40 13 0.06
41 4 0.02
42 3 0.01
43 2 0.01
44 9 0.04
45 65 0.30
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (34 bp):
ATGCCGATAATGCACCCATATGCATTATTCTTTT
Found at i:1287194 original size:45 final size:43
Alignment explanation
Indices: 1287130--1287554 Score: 276
Period size: 45 Copynumber: 10.5 Consensus size: 43
1287120 TTTTATGCTG
1287130 ATAATGCACCCATATGCATTTAAGTTATGTCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTAAGTTAT-TCAT-CTTTCATGCCA
*
1287175 ATAATGCACCCATATGC-----A-TTATTC-T-TTT-ATGCCG
1 ATAATGCACCCATATGCATTTAAGTTATTCATCTTTCATGCCA
* *
1287209 ATAATGCACCCATATGCATTTAAGCTATTGCATCATTTCATTCCA
1 ATAATGCACCCATATGCATTTAAGTTATT-CATC-TTTCATGCCA
*
1287254 ATAATGCACCCATATGC-----A-TTATTC-T-TTT-ATGCCG
1 ATAATGCACCCATATGCATTTAAGTTATTCATCTTTCATGCCA
* *
1287288 ATAATGCACCCATATGCATTTAAGCTATTGCATCCTTTCATTCCA
1 ATAATGCACCCATATGCATTTAAGTTATT-CAT-CTTTCATGCCA
* *
1287333 ATAATGCACCCATATGC-----A-TTATTC-T-TTT-ATGTCG
1 ATAATGCACCCATATGCATTTAAGTTATTCATCTTTCATGCCA
* * *
1287367 ATAATGCA-CCATATGCATTTTAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTAAGTTAT-TCAT-CTTTCATGCCA
* * **
1287411 ATAATGCACCCATATGCATTTCAGCTATGGAATACTTTCATGCCA
1 ATAATGCACCCATATGCATTTAAGTTAT-TCAT-CTTTCATGCCA
* * * *
1287456 ATAATGCATCCATAT--A---CA-TTATTC-T-TTT-ATGTCG
1 ATAATGCACCCATATGCATTTAAGTTATTCATCTTTCATGCCA
* * * *
1287490 ACAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTAAGTTAT-TCAT-CTTTCATGCCA
1287535 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
1287555 AATTTTTTAT
Statistics
Matches: 301, Mismatches: 34, Indels: 90
0.71 0.08 0.21
Matches are distributed among these distances:
33 8 0.03
34 71 0.24
35 12 0.04
36 1 0.00
37 4 0.01
38 5 0.02
39 22 0.07
40 17 0.06
41 4 0.01
42 3 0.01
43 4 0.01
44 21 0.07
45 129 0.43
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (43 bp):
ATAATGCACCCATATGCATTTAAGTTATTCATCTTTCATGCCA
Found at i:1287420 original size:123 final size:124
Alignment explanation
Indices: 1287277--1287554 Score: 450
Period size: 123 Copynumber: 2.2 Consensus size: 124
1287267 ATGCATTATT
* * * * * *
1287277 CTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATTGCATCCTTTCATTCCAATAATGCAC
1 CTTTCATGCCAATAATGCACCCATATGCATTTAAGCTATGGAATACTTTCATGCCAATAATGCAC
* * *
1287342 CCATATGCATTATTCTTTTATGTCGATAATGCA-CCATATGCATTTTAGCTATGGCATC
66 CCATATACATTATTCTTTTATGTCGACAATGCACCCATATGCATTTCAGCTATGGCATC
* *
1287400 CTTTCATGCCAATAATGCACCCATATGCATTTCAGCTATGGAATACTTTCATGCCAATAATGCAT
1 CTTTCATGCCAATAATGCACCCATATGCATTTAAGCTATGGAATACTTTCATGCCAATAATGCAC
1287465 CCATATACATTATTCTTTTATGTCGACAATGCACCCATATGCATTTCAGCTATGGCATC
66 CCATATACATTATTCTTTTATGTCGACAATGCACCCATATGCATTTCAGCTATGGCATC
1287524 CTTTCATGCCAATAATGCACCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATT
1287555 AATTTTTTAT
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
123 88 0.62
124 55 0.38
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (124 bp):
CTTTCATGCCAATAATGCACCCATATGCATTTAAGCTATGGAATACTTTCATGCCAATAATGCAC
CCATATACATTATTCTTTTATGTCGACAATGCACCCATATGCATTTCAGCTATGGCATC
Found at i:1287478 original size:202 final size:202
Alignment explanation
Indices: 1287198--1287564 Score: 585
Period size: 202 Copynumber: 1.8 Consensus size: 202
1287188 ATGCATTATT
* * * * *
1287198 CTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATTGCATCATTTCATTCCAATAATGCAC
1 CTTTCATGCCAATAATGCACCCATATGCATTTAAGCTATGGAATCATTTCATGCCAATAATGCAC
* * *
1287263 CCATATGCATTATTCTTTTATGCCGATAATGCACCCATATGCATTTAAGCTATTGCATCCTTTCA
66 CCATATACATTATTCTTTTATGCCGACAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCA
*
1287328 TTCCAATAATGCACCCATATGCATT-ATTCTTTTATGTCGATAATGCACCATATGCATTTTAGCT
131 TGCCAATAATGCACCCATATGCATTAATT-TTTTATGTCGATAATGCACCATATGCATTTTAGCT
1287392 ATGGCATC
195 ATGGCATC
*
1287400 CTTTCATGCCAATAATGCACCCATATGCATTTCAGCTATGGAAT-ACTTTCATGCCAATAATGCA
1 CTTTCATGCCAATAATGCACCCATATGCATTTAAGCTATGGAATCA-TTTCATGCCAATAATGCA
* * *
1287464 TCCATATACATTATTCTTTTATGTCGACAATGCACCCATATGCATTTCAGCTATGGCATCCTTTC
65 CCCATATACATTATTCTTTTATGCCGACAATGCACCCATATGCATTTAAGCTATGGCATCCTTTC
1287529 ATGCCAATAATGCACCCATATGCATTAATTTTTTAT
130 ATGCCAATAATGCACCCATATGCATTAATTTTTTAT
1287565 TCATTCTTTC
Statistics
Matches: 150, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
201 1 0.01
202 146 0.97
203 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (202 bp):
CTTTCATGCCAATAATGCACCCATATGCATTTAAGCTATGGAATCATTTCATGCCAATAATGCAC
CCATATACATTATTCTTTTATGCCGACAATGCACCCATATGCATTTAAGCTATGGCATCCTTTCA
TGCCAATAATGCACCCATATGCATTAATTTTTTATGTCGATAATGCACCATATGCATTTTAGCTA
TGGCATC
Found at i:1287548 original size:79 final size:79
Alignment explanation
Indices: 1287413--1287564 Score: 252
Period size: 79 Copynumber: 1.9 Consensus size: 79
1287403 TCATGCCAAT
*
1287413 AATGCACCCATATGCATTTCAGCTATGGAATACTTTCATGCCAATAATGCATCCATATACATT-A
1 AATGCACCCATATGCATTTCAGCTATGGAATACTTTCATGCCAATAATGCACCCATATACATTAA
1287477 TTCTTTTATGTCGAC
66 TT-TTTTATGTCGAC
* * *
1287492 AATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAA
1 AATGCACCCATATGCATTTCAGCTATGGAATACTTTCATGCCAATAATGCACCCATATACATTAA
1287557 TTTTTTAT
66 TTTTTTAT
1287565 TCATTCTTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
79 65 0.96
80 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
AATGCACCCATATGCATTTCAGCTATGGAATACTTTCATGCCAATAATGCACCCATATACATTAA
TTTTTTATGTCGAC
Found at i:1289231 original size:60 final size:60
Alignment explanation
Indices: 1289135--1289265 Score: 172
Period size: 60 Copynumber: 2.2 Consensus size: 60
1289125 AACAATGGTA
* * * ** *
1289135 CTCATTTTAAATTTGTTATTAAACTTTTCAATATTCTAATTTCATCCGTAAATTATGAAT
1 CTCATTCTAAATTAGTTATTAAACTTTTCAACATTCTAATTTCATCCACAAACTATGAAT
* * * *
1289195 TTCATTCTAAATTAGTTCTTAAACTTTTGAACATTCTAATTTCATCCACAAACTATGACT
1 CTCATTCTAAATTAGTTATTAAACTTTTCAACATTCTAATTTCATCCACAAACTATGAAT
1289255 CTCATTCTAAA
1 CTCATTCTAAA
1289266 ATGGTCCCCA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.44
Consensus pattern (60 bp):
CTCATTCTAAATTAGTTATTAAACTTTTCAACATTCTAATTTCATCCACAAACTATGAAT
Found at i:1289279 original size:60 final size:60
Alignment explanation
Indices: 1289155--1289285 Score: 145
Period size: 60 Copynumber: 2.2 Consensus size: 60
1289145 ATTTGTTATT
* * ** * * * * **
1289155 AAACTTTTCAATATTCTAATTTCATCCGTAAATTATGAATTTCATTCTAAATTAGTTCTT
1 AAACTTTTGAACATTCTAATTTCATCCACAAACTATGAATCTCATTCTAAAATAGTCCCC
* *
1289215 AAACTTTTGAACATTCTAATTTCATCCACAAACTATGACTCTCATTCTAAAATGGTCCCC
1 AAACTTTTGAACATTCTAATTTCATCCACAAACTATGAATCTCATTCTAAAATAGTCCCC
*
1289275 AAACTTCTGAA
1 AAACTTTTGAA
1289286 TCTTTCAATT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (60 bp):
AAACTTTTGAACATTCTAATTTCATCCACAAACTATGAATCTCATTCTAAAATAGTCCCC
Found at i:1294885 original size:24 final size:23
Alignment explanation
Indices: 1294858--1294945 Score: 95
Period size: 24 Copynumber: 3.7 Consensus size: 23
1294848 ATTTTCGACT
*
1294858 TGAATTCTGTTCTGATACATTACC
1 TGAATTCTGTTCTGATAC-TTATC
* * *
1294882 TGAATTTTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGA-TACTTATC
*
1294906 TGGATTCTGTTCTGATATCTTATC
1 TGAATTCTGTTCTGATA-CTTATC
*
1294930 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
1294946 TTCTGATATC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.02
24 49 0.94
25 2 0.04
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.50
Consensus pattern (23 bp):
TGAATTCTGTTCTGATACTTATC
Found at i:1294913 original size:48 final size:48
Alignment explanation
Indices: 1294861--1294952 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
1294851 TTCGACTTGA
*
1294861 ATTCTGTTCTGATA-CATTACCTGAATTTTGTTCTGATTTCTGATCTGG
1 ATTCTGTTCTGATATC-TTACCTGAATTCTGTTCTGATTTCTGATCTGG
* *
1294909 ATTCTGTTCTGATATCTTATCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTCTGATATCTTACCTGAATTCTGTTCTGATTTCTGAT
1294953 ATCTCCGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (48 bp):
ATTCTGTTCTGATATCTTACCTGAATTCTGTTCTGATTTCTGATCTGG
Found at i:1295118 original size:2 final size:2
Alignment explanation
Indices: 1295111--1295153 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1295101 GATGGGGGTG
1295111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1295153 T
1 T
1295154 GTTTTAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1296778 original size:138 final size:138
Alignment explanation
Indices: 1296530--1296807 Score: 556
Period size: 138 Copynumber: 2.0 Consensus size: 138
1296520 ATACACGTGT
1296530 ATAGAATAAAATTGATCATCTATTATGTAAAAAATATATGATATGAAGTTGTAGTAATGATAATC
1 ATAGAATAAAATTGATCATCTATTATGTAAAAAATATATGATATGAAGTTGTAGTAATGATAATC
1296595 TAACAAGAACGATATAATATTATAATTAGCGGTATGTATTTCTGGATATCTAAAAATCGAGTTTC
66 TAACAAGAACGATATAATATTATAATTAGCGGTATGTATTTCTGGATATCTAAAAATCGAGTTTC
1296660 TAACTGTG
131 TAACTGTG
1296668 ATAGAATAAAATTGATCATCTATTATGTAAAAAATATATGATATGAAGTTGTAGTAATGATAATC
1 ATAGAATAAAATTGATCATCTATTATGTAAAAAATATATGATATGAAGTTGTAGTAATGATAATC
1296733 TAACAAGAACGATATAATATTATAATTAGCGGTATGTATTTCTGGATATCTAAAAATCGAGTTTC
66 TAACAAGAACGATATAATATTATAATTAGCGGTATGTATTTCTGGATATCTAAAAATCGAGTTTC
1296798 TAACTGTG
131 TAACTGTG
1296806 AT
1 AT
1296808 TTTAATTCAA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 140 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (138 bp):
ATAGAATAAAATTGATCATCTATTATGTAAAAAATATATGATATGAAGTTGTAGTAATGATAATC
TAACAAGAACGATATAATATTATAATTAGCGGTATGTATTTCTGGATATCTAAAAATCGAGTTTC
TAACTGTG
Found at i:1297538 original size:23 final size:23
Alignment explanation
Indices: 1297508--1297551 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1297498 AGCCCCCTAC
*
1297508 AATCAACGATTAAGATTAGATTA
1 AATCAACGATTAAGATGAGATTA
*
1297531 AATCAACGGTTAAGATGAGAT
1 AATCAACGATTAAGATGAGAT
1297552 CCCTACTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (23 bp):
AATCAACGATTAAGATGAGATTA
Found at i:1300948 original size:19 final size:19
Alignment explanation
Indices: 1300847--1300954 Score: 55
Period size: 19 Copynumber: 5.8 Consensus size: 19
1300837 GTTATTTTAG
*
1300847 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* ** *
1300866 TTTAATAAATTTTTAGGAT
1 TTTAATTAGGTTTTAGTAT
* **
1300885 TTT-TTTATATTTTA-TAT
1 TTTAATTAGGTTTTAGTAT
* *
1300902 TTGT-TTTAGGTATTT--TAG
1 TT-TAATTAGGT-TTTAGTAT
*
1300920 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
*
1300939 TTTAATTAGGATTTAG
1 TTTAATTAGGTTTTAG
1300955 AATATTTTTT
Statistics
Matches: 66, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
17 8 0.12
18 22 0.33
19 36 0.55
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:1300954 original size:73 final size:73
Alignment explanation
Indices: 1300816--1301035 Score: 275
Period size: 73 Copynumber: 3.0 Consensus size: 73
1300806 ATTTTAAACA
* * * ***
1300816 TTATATTTTATCTTTGTTTTAGTTATTTTAGTTTAAATAGGTTTTAGTATTTTAATAAATTTTTA
1 TTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTA
1300881 GGATTTTT
66 GGATTTTT
1300889 TTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTA
1 TTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTA
*
1300954 GAATATTTTT
66 G--GATTTTT
* * * *
1300964 TTAAATATTA-ATAT-TTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTT
1 TTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTT
* *
1301026 AAGATATTT
65 AGGATTTTT
1301035 T
1 T
1301036 AGCTTATTTT
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
71 6 0.05
72 5 0.04
73 102 0.78
74 3 0.02
75 14 0.11
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.58
Consensus pattern (73 bp):
TTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTA
GGATTTTT
Found at i:1301699 original size:16 final size:15
Alignment explanation
Indices: 1301678--1301714 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1301668 AACCCCCTTT
1301678 TTATTTATTACTATTA
1 TTATTTATTA-TATTA
*
1301694 TTATTTATTATTTTA
1 TTATTTATTATATTA
1301709 TTATTT
1 TTATTT
1301715 CCCTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTATTATATTA
Found at i:1301726 original size:20 final size:20
Alignment explanation
Indices: 1301689--1301750 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
1301679 TATTTATTAC
*
1301689 TATTATTAT-T-TATTATTT
1 TATTATTATCTATTTTATTT
1301707 TATTATT-TCCCTA-TTTA-TT
1 TATTATTAT--CTATTTTATTT
1301726 TATTATTATCTATTTTATTT
1 TATTATTATCTATTTTATTT
1301746 TATTA
1 TATTA
1301751 AATCTTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
17 1 0.03
18 10 0.28
19 13 0.36
20 12 0.33
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTATTATCTATTTTATTT
Found at i:1306327 original size:76 final size:75
Alignment explanation
Indices: 1306220--1306433 Score: 290
Period size: 76 Copynumber: 2.9 Consensus size: 75
1306210 ATTTTAAACA
*
1306220 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTAAATTAAGTTTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTAAATTAAGATTTA
*
1306285 GGATATTATTT
66 GAATATTA-TT
* * *
1306296 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTTTTTTAATTAGGATTTA
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTAAATTAAGATTTA
1306361 GAATATTATT
66 GAATATTATT
* * * * * *
1306371 TTAAATATTAT-TAT-TTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTATGATTT
1 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTAAATTAAGATTT
1306433 A
65 A
1306434 AGATGTTTTA
Statistics
Matches: 127, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
72 5 0.04
73 41 0.32
74 2 0.02
75 11 0.09
76 68 0.54
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.58
Consensus pattern (75 bp):
TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTAAATTAAGATTTA
GAATATTATT
Found at i:1307118 original size:40 final size:38
Alignment explanation
Indices: 1307074--1307149 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 38
1307064 AATTCAAAAC
*
1307074 CCCTTTTTATTTATTACTAT-TAATTTATTATTTTATTATT
1 CCCTTTTTATTTATTAATATAT-A-TT-TTATTTTATTATT
1307114 CCCTTTTTATTTATTAATATATATTTTATTTTATTA
1 CCCTTTTTATTTATTAATATATATTTTATTTTATTA
1307150 AATCTTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 11 0.32
39 2 0.06
40 20 0.59
41 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (38 bp):
CCCTTTTTATTTATTAATATATATTTTATTTTATTATT
Found at i:1308288 original size:26 final size:26
Alignment explanation
Indices: 1308251--1308308 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
1308241 CCAAGTCTCG
* *
1308251 ATGGCATCATTCGCATGCTTCACATC
1 ATGGCATCATTCACATGCTTCAAATC
1308277 ATGGCAGT-ATTCACATGCTTCAAATC
1 ATGGCA-TCATTCACATGCTTCAAATC
1308303 ATGGCA
1 ATGGCA
1308309 CCTACATCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (26 bp):
ATGGCATCATTCACATGCTTCAAATC
Found at i:1312199 original size:19 final size:19
Alignment explanation
Indices: 1312163--1312200 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1312153 TGGAAAATTA
*
1312163 ATCTCAATGGCTCCGAAAC
1 ATCTCAATGGCTCAGAAAC
1312182 ATCTCTAATGGCT-AGAAAC
1 ATCTC-AATGGCTCAGAAAC
1312201 GGCTACAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (19 bp):
ATCTCAATGGCTCAGAAAC
Found at i:1313447 original size:157 final size:159
Alignment explanation
Indices: 1313147--1313462 Score: 602
Period size: 157 Copynumber: 2.0 Consensus size: 159
1313137 CTATTTTGCA
1313147 TAATAGTATCGATACCATAAACCCTATTATCGATATTATTCAAGCCCAACGATCTTTAACGACCA
1 TAATAGTATCGATACCATAAACCCTATTATCGATATTATTCAAGCCCAACGATCTTTAACGACCA
1313212 ATTTATTTAAATATTAGAAAGGCAGTATCGATACTCCTAGCCTGAGTACCTATACTTCCTTTCTA
66 ATTTATTTAAATATTAGAAAGGCAGTATCGATACTCCTAGCCTGAGTACCTATACTTCCTTTCTA
1313277 GCCGTTTTAA-TTT-TAAAAAAATAATCC
131 GCCGTTTTAATTTTGTAAAAAAATAATCC
1313304 TAATAGTATCGATACCATAAACCCTATTATCGATATTATTCAAGCCCAACGATCTTTAACGACCA
1 TAATAGTATCGATACCATAAACCCTATTATCGATATTATTCAAGCCCAACGATCTTTAACGACCA
1313369 ATTTATTTAAATATTAGAAAGGCAGTATCGATACTCCTAGCCTGAGTACCTATACTTCCTGTTCT
66 ATTTATTTAAATATTAGAAAGGCAGTATCGATACTCCTAGCCTGAGTACCTATACTTCCT-TTCT
1313434 AGCCGTTTT-ATTTTGTAAAAAAATAATCC
130 AGCCGTTTTAATTTTGTAAAAAAATAATCC
1313463 CAACGGCTCT
Statistics
Matches: 156, Mismatches: 0, Indels: 4
0.98 0.00 0.03
Matches are distributed among these distances:
157 126 0.81
158 16 0.10
159 14 0.09
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (159 bp):
TAATAGTATCGATACCATAAACCCTATTATCGATATTATTCAAGCCCAACGATCTTTAACGACCA
ATTTATTTAAATATTAGAAAGGCAGTATCGATACTCCTAGCCTGAGTACCTATACTTCCTTTCTA
GCCGTTTTAATTTTGTAAAAAAATAATCC
Found at i:1314728 original size:20 final size:19
Alignment explanation
Indices: 1314691--1314735 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1314681 TGAGTTTCCG
*
1314691 AAAGAAGAAAGGAAAAGAA
1 AAAGAAGAAAGAAAAAGAA
*
1314710 GAAGAAGAGAAGAAAAAGAA
1 AAAGAAGA-AAGAAAAAGAA
1314730 AAAGAA
1 AAAGAA
1314736 TGAGGTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAGAAAGAAAAAGAA
Found at i:1315883 original size:21 final size:21
Alignment explanation
Indices: 1315828--1315888 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
1315818 GCTAATCTTC
* *
1315828 CAAAAGGGATGGATCCTTTTT
1 CAAAATGGATCGATCCTTTTT
* *
1315849 CCACAT-GATCGATCCTTTTT
1 CAAAATGGATCGATCCTTTTT
*
1315869 CAAAATGGATTGATCCTTTT
1 CAAAATGGATCGATCCTTTT
1315889 ATGGAAAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (21 bp):
CAAAATGGATCGATCCTTTTT
Found at i:1327815 original size:342 final size:332
Alignment explanation
Indices: 1327223--1327839 Score: 793
Period size: 342 Copynumber: 1.8 Consensus size: 332
1327213 CTAGGCTAGT
* * * * *
1327223 AGTGTTAGATCTAGTATCTCTTGAAGAACGTGTATCGTGCTAATCTACCAAATAAGTAGCACCAA
1 AGTGTTAGATCTAGTAGCTCTTGAAGAACGTGTATCATGCAAATCTACCAAATAAGAAGAACCAA
* * * * * * * * *
1327288 ATGTATTTAAGCCTCGAATAGGGGTATCACGAGCGCCTTCATGAAAAATATTCTCAGATCAATTC
66 ATCTAGTCAACCCTCGAATAGGGGAATCAAGAGCACATTAATGAAAAATATTCTCAGATCAATTC
* * ** *
1327353 TACATTCATTACCCAATTAATCATATAAAAACTACTCGGCATTTTCAGATTAACGAGCTCATTTT
131 TACATTCATTACCCAAGTAATCATATAAAAAATACTAAGCATTTTCAGATGAACGAGCTCATTTT
* * *
1327418 GGGCCTCACGAGTAAGAATTTGGATAAATTGACCGTAAAATAAGCCTTAGGACATCGTAAAACAT
196 GGGCCTCACGAGTAAGAATTTGGAGAAATTGACCATAAAATAAGCCTTAGGACATCGTAAAACAA
*
1327483 CAATAGAGAGATTTTTTTTAAAATATAAATGCTTGTTAACGATGAAAGTCAATGCCACTAATCAG
261 CAAGAGAGAGATTTTTTTTAAAATATAAATGCTTGTTAACGATGAAAGTCAATGCCACTAATCAG
1327548 GAATGGA
326 GAATGGA
* * * **
1327555 AGTGTTAGATCTAGTAGCTCTTGAAGAATGTGTATCATGCAAATCTACCAAATAGGAATAACTGA
1 AGTGTTAGATCTAGTAGCTCTTGAAGAACGTGTATCATGCAAATCTACCAAATAAGAAGAACCAA
* * *
1327620 ATCTAGTCGACCCTTGAATAGGGGAATCAAGAGTACATTAATGAAAATATATTCTCAGATCAATT
66 ATCTAGTCAACCCTCGAATAGGGGAATCAAGAGCACATTAATGAAAA-ATATTCTCAGATCAATT
* * * *
1327685 CTATATATGATTACCCAAGTAATCATACTGAAATACAGAAAATACTAAGTATTTTCAGATGAATG
130 CTACAT-TCATTACCCAAGTAATC--A-T---ATA-A-AAAATACTAAGCATTTTCAGATGAACG
** * *
1327750 AGCTCATTTTGGGCCTTTCGGGTAAGAATTTGGAGAAATTGACCATAAAATTAGCCTTAGGACAT
186 AGCTCATTTTGGGCCTCACGAGTAAGAATTTGGAGAAATTGACCATAAAATAAGCCTTAGGACAT
1327815 CGTAAAACAACAAGAGAGAGATTTT
251 CGTAAAACAACAAGAGAGAGATTTT
1327840 CAAAAAAAGG
Statistics
Matches: 236, Mismatches: 39, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
332 90 0.38
333 22 0.09
334 15 0.06
336 1 0.00
337 1 0.00
340 3 0.01
341 1 0.00
342 103 0.44
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (332 bp):
AGTGTTAGATCTAGTAGCTCTTGAAGAACGTGTATCATGCAAATCTACCAAATAAGAAGAACCAA
ATCTAGTCAACCCTCGAATAGGGGAATCAAGAGCACATTAATGAAAAATATTCTCAGATCAATTC
TACATTCATTACCCAAGTAATCATATAAAAAATACTAAGCATTTTCAGATGAACGAGCTCATTTT
GGGCCTCACGAGTAAGAATTTGGAGAAATTGACCATAAAATAAGCCTTAGGACATCGTAAAACAA
CAAGAGAGAGATTTTTTTTAAAATATAAATGCTTGTTAACGATGAAAGTCAATGCCACTAATCAG
GAATGGA
Found at i:1328401 original size:397 final size:396
Alignment explanation
Indices: 1327555--1329072 Score: 1811
Period size: 397 Copynumber: 3.8 Consensus size: 396
1327545 CAGGAATGGA
* * ** **
1327555 AGTGTTAGATCTAGTAGCTCTTGAAGAATGTGTATCATGCAAATCTACCAAATAGGAATAACTGA
1 AGTGTTAGATCTAGTAGCTCTTGAAGAACGTGTATCATGCTAATCTACCAAATAGGAAGCACCAA
* * * *
1327620 ATCTAGTCGACCCTTGAATAGGGGAATCA-AGAGTACATTAATGAAAATATATTCTCAGATCAAT
66 ATCTAGTCGACCCTCGAATATGGGAATCACA-AGTACCTTCATGAAAATATATTCTCAGATCAAT
* * * * * *
1327684 TCTATATATGATTACCCAAGTAATCATACTGAAATACAGAAAA-TACTAAGTATTTTCAGATGAA
130 TCTACA-CTCATTACCCAAGTAATCATACTGAAATACA-AAAATTACTAAGAATTTTCTGATTAA
* * ** *
1327748 TGAGCTCATTTTGGGCCTTTCGGGTAAGAATTTGGAGAAA-TTGACCATAAAATTAGCCTTAGGA
193 CGAGCTCATTTTGGGCCTTTCGGGTAAGAATTTGGAGAAACAT-AATATAAAATCAGCCTTAGGA
* ** * ** *
1327812 CATCGTAAAACAACAAGAGAGAGATTTTCAAAAAAAGGTAACGCTGGTTAATGGTCAAAGTTAAT
257 CATCGTAAAACATCAAGAGAGAGATTTTTGAAAAAA-TTAACAATGGTTAA-CGTCAAAGTTAAT
* * * * *
1327877 GCAACTGATCGTGATTGGCAAGCCCGAGACTAGACTAAAGTAGCCTAGTCTCAGG-CCTACCAAT
320 GCCACTAATCGTGATTGGCAAGCCCGAGACTAGGCTAAGGTAGCCTAGTCTC-GGACCTGCCAAT
*
1327941 CACAGTCAGTGGC
384 CACGGTCAGTGGC
* * *
1327954 AGTGTTAGATCTAGTAGCTCTTGAAGAACGTGTATCGTGGTAATCTACCAAATACGAAGCACCAA
1 AGTGTTAGATCTAGTAGCTCTTGAAGAACGTGTATCATGCTAATCTACCAAATAGGAAGCACCAA
* * *
1328019 ATCTAGTTGATCCTCGAATATGGGAATCACAAGTACCTTCATGAAAATATATTCTCAGATAAATT
66 ATCTAGTCGACCCTCGAATATGGGAATCACAAGTACCTTCATGAAAATATATTCTCAGATCAATT
* *
1328084 CTACACTCATTACCCAAGTTATCATACTGAAATACAAAAATTACTAACAATTTTCTGATTAACGA
131 CTACACTCATTACCCAAGTAATCATACTGAAATACAAAAATTACTAAGAATTTTCTGATTAACGA
**
1328149 GCTCATTTTGGGCCTTTCGGGTAAGAATTTGGAGAAACATAATATAAAATTGGCCTTAGGACATC
196 GCTCATTTTGGGCCTTTCGGGTAAGAATTTGGAGAAACATAATATAAAATCAGCCTTAGGACATC
* * * * * **
1328214 GTAAAATATCAAGATAGAGGTTTTTGAAAAAATTAACATTGATTAACGATCACAA-CCAATGCCA
261 GTAAAACATCAAGAGAGAGATTTTTGAAAAAATTAACAATGGTTAACG-TCA-AAGTTAATGCCA
*
1328278 CTAATCGTGATTGGCAAGCCCGAGACTAGGCTAAGGTAGCCTAGTCTCGGACCTGCCAATTACGG
324 CTAATCGTGATTGGCAAGCCCGAGACTAGGCTAAGGTAGCCTAGTCTCGGACCTGCCAATCACGG
*
1328343 TCAGTGGT
389 TCAGTGGC
*
1328351 AGTGTTAGATCTAATAGCTCTTGAAGAACGTGTATCATGCTAATCTACCAAATAGGAAGCACCAA
1 AGTGTTAGATCTAGTAGCTCTTGAAGAACGTGTATCATGCTAATCTACCAAATAGGAAGCACCAA
* * ** ** **
1328416 ATCCAGTCAACCCTCGAATATGGGAATCATGAGTACCTTCATGAAAATATAGCCTTGGATCAATT
66 ATCTAGTCGACCCTCGAATATGGGAATCACAAGTACCTTCATGAAAATATATTCTCAGATCAATT
* *
1328481 CTACACTCATTACCCAAGTTATCATACTGAAATACAAAAATTACTAAGTATTTTCAT-ATTAACG
131 CTACACTCATTACCCAAGTAATCATACTGAAATACAAAAATTACTAAGAATTTTC-TGATTAACG
* * * * * * **
1328545 AGCTCATTTTGGGCCTTTCGAGTAAGAATTTGAAGAAACA-GATCGTAAAATCAACCCTAAAACA
195 AGCTCATTTTGGGCCTTTCGGGTAAGAATTTGGAGAAACATAAT-ATAAAATCAGCCTTAGGACA
* * * * *
1328609 TCGTAAAACATCAAAAGAGAGTTTTTTGAAAAACGTTATCAATGGGTAACTGTCAAAGTTAATGC
259 TCGTAAAACATCAAGAGAGAGATTTTTGAAAAA-ATTAACAATGGTTAAC-GTCAAAGTTAATGC
* *
1328674 CACTAATCGTGATTGGC-AGACACGAGACTAGGCTAAGGTA-TCTAGTCTC--ACGCTTGCCAAT
322 CACTAATCGTGATTGGCAAG-CCCGAGACTAGGCTAAGGTAGCCTAGTCTCGGAC-C-TGCCAAT
1328735 CACGGTCAGTGGC
384 CACGGTCAGTGGC
* * * * * *
1328748 ACTGTTAGATCTAGTAGCTCTTAAAGAACATATATCATGCTTATCTACCAAATAGGTAGCACCAA
1 AGTGTTAGATCTAGTAGCTCTTGAAGAACGTGTATCATGCTAATCTACCAAATAGGAAGCACCAA
* * * ** * * *
1328813 ATCTAGTCCACCCTCGAATATGGGAATCACGAGTGCCTTTGTGAAAACATATTCTCAAATTAATT
66 ATCTAGTCGACCCTCGAATATGGGAATCACAAGTACCTTCATGAAAATATATTCTCAGATCAATT
* * *
1328878 ATACATTCATTACCCAAGTAATCATATTGAAATACAAAAATTACTAAGAATTTT-TAGATTAACG
131 CTACACTCATTACCCAAGTAATCATACTGAAATACAAAAATTACTAAGAATTTTCT-GATTAACG
* ** * * *
1328942 ATCTCATTTTGGGCC-TTCTGGGTAAGAATTTGGAGAAACGGACTGTTAAATCAGCCTTAGGACA
195 AGCTCATTTTGGGCCTTTC-GGGTAAGAATTTGGAGAAACATAATATAAAATCAGCCTTAGGACA
* * * * *
1329006 TCGTAAAACATCAAGAGAGATATTTTTGAAAATATTAACACTGGTTAATGGTCAAAGTCAATGCC
259 TCGTAAAACATCAAGAGAGAGATTTTTGAAAAAATTAACAATGGTTAA-CGTCAAAGTTAATGCC
1329071 AC
323 AC
1329073 GATCAGTGGC
Statistics
Matches: 962, Mismatches: 138, Indels: 41
0.84 0.12 0.04
Matches are distributed among these distances:
395 3 0.00
396 36 0.04
397 613 0.64
398 191 0.20
399 118 0.12
400 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (396 bp):
AGTGTTAGATCTAGTAGCTCTTGAAGAACGTGTATCATGCTAATCTACCAAATAGGAAGCACCAA
ATCTAGTCGACCCTCGAATATGGGAATCACAAGTACCTTCATGAAAATATATTCTCAGATCAATT
CTACACTCATTACCCAAGTAATCATACTGAAATACAAAAATTACTAAGAATTTTCTGATTAACGA
GCTCATTTTGGGCCTTTCGGGTAAGAATTTGGAGAAACATAATATAAAATCAGCCTTAGGACATC
GTAAAACATCAAGAGAGAGATTTTTGAAAAAATTAACAATGGTTAACGTCAAAGTTAATGCCACT
AATCGTGATTGGCAAGCCCGAGACTAGGCTAAGGTAGCCTAGTCTCGGACCTGCCAATCACGGTC
AGTGGC
Found at i:1331321 original size:25 final size:25
Alignment explanation
Indices: 1331287--1331335 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1331277 ACTTGCTTGC
**
1331287 TAGCTATATGCACGTCTATACTAGT
1 TAGCTATATGCACACCTATACTAGT
1331312 TAGCTATATGCACACCTATACTAG
1 TAGCTATATGCACACCTATACTAG
1331336 CTTGGGGGAG
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:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (25 bp):
TAGCTATATGCACACCTATACTAGT
Found at i:1338810 original size:7 final size:7
Alignment explanation
Indices: 1338798--1338827 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1338788 AACTAAGTAG
1338798 TTTTGTT
1 TTTTGTT
1338805 TTTTGTT
1 TTTTGTT
1338812 TTTTGTT
1 TTTTGTT
1338819 TTTT-TT
1 TTTTGTT
1338825 TTT
1 TTT
1338828 GTAGCAGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (7 bp):
TTTTGTT
Found at i:1355205 original size:38 final size:38
Alignment explanation
Indices: 1355116--1355275 Score: 232
Period size: 38 Copynumber: 4.2 Consensus size: 38
1355106 CGAGTAATAT
* * * * * *
1355116 ATATGCACCGTAGTGCTTACACAAAAGGTCGTTCCCACC
1 ATATGCACCGAAGTGC-TATACATAAGGGCGTGCCAACC
*
1355155 ATATGCATCGAAGTGCTATACATAAGGGCGTGCCAACC
1 ATATGCACCGAAGTGCTATACATAAGGGCGTGCCAACC
1355193 ATATGCACCGAAGTGCTATACATAAGGGCGTGCCAACC
1 ATATGCACCGAAGTGCTATACATAAGGGCGTGCCAACC
*
1355231 ATATGCACCGAAGTGCTATACATAAGGTCGTGCC-ACC
1 ATATGCACCGAAGTGCTATACATAAGGGCGTGCCAACC
1355268 ATATGCAC
1 ATATGCAC
1355276 TTAGTGTCCT
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
37 11 0.10
38 87 0.78
39 14 0.12
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (38 bp):
ATATGCACCGAAGTGCTATACATAAGGGCGTGCCAACC
Found at i:1365202 original size:15 final size:15
Alignment explanation
Indices: 1365184--1365213 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1365174 GGTATCTCTC
1365184 TTTTT-TATTTTATT
1 TTTTTATATTTTATT
1365198 TTTTTATATTTTATT
1 TTTTTATATTTTATT
1365213 T
1 T
1365214 ATGTTCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATATTTTATT
Found at i:1368270 original size:21 final size:21
Alignment explanation
Indices: 1368244--1368292 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1368234 GGGAGCGTCA
1368244 GTGCATCGATGCATACCCTAG
1 GTGCATCGATGCATACCCTAG
*
1368265 GTGCATTGATGCATACCCTAG
1 GTGCATCGATGCATACCCTAG
1368286 GTGCATC
1 GTGCATC
1368293 AGTGTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (21 bp):
GTGCATCGATGCATACCCTAG
Found at i:1368445 original size:46 final size:45
Alignment explanation
Indices: 1368390--1368480 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
1368380 TTGAAAAAGC
* * *
1368390 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGT-ATGTACATCGATGCATAAAATGCA
1368436 CTGAGTGCATCGATGCATGGTATGTACATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTATGTACATCGATGCATAAAATGCA
1368481 TTCGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (45 bp):
CTGAGTGCATCGATGCATGGTATGTACATCGATGCATAAAATGCA
Found at i:1377028 original size:29 final size:29
Alignment explanation
Indices: 1376986--1377052 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
1376976 TGGGAGCGTC
*
1376986 AGTGCATCGATGCATACCCTAGGTGCATA
1 AGTGCATCAATGCATACCCTAGGTGCATA
*
1377015 AGTGCATCAATGCATACCCTAGGTGCATC
1 AGTGCATCAATGCATACCCTAGGTGCATA
1377044 AGTGCATCA
1 AGTGCATCA
1377053 GTTTAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (29 bp):
AGTGCATCAATGCATACCCTAGGTGCATA
Found at i:1379290 original size:16 final size:16
Alignment explanation
Indices: 1379269--1379319 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
1379259 TACTAAAATT
* *
1379269 AAATAAAACAGAATAA
1 AAATAAAATAAAATAA
**
1379285 AAATAAAATATCATAA
1 AAATAAAATAAAATAA
1379301 AAATAAAATAAAATAA
1 AAATAAAATAAAATAA
1379317 AAA
1 AAA
1379320 AATATTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:1379294 original size:5 final size:5
Alignment explanation
Indices: 1379262--1379318 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
1379252 TTGTCAATAC
* * * **
1379262 TAAAA TTAAA TAAAA CAGAA TAAAAA TAAAA TATCA TAAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA T-AAAA TAAAA TAAAA
1379314 TAAAA
1 TAAAA
1379319 AAATATTACT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
5 33 0.82
6 7 0.17
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:1381194 original size:111 final size:111
Alignment explanation
Indices: 1380995--1381213 Score: 375
Period size: 111 Copynumber: 2.0 Consensus size: 111
1380985 CCGCATGCGC
*
1380995 GACATATCAATGGTCACCATTGGTTCGGTGGCGGAAACTTTTAACCATGTTAGGGTAAAACCCTA
1 GACATATCAATGGTCACCATTGGTTCGGCGGCGGAAACTTTTAACCATGTTAGGGTAAAACCCTA
* *
1381060 ATTTATATTGTATCTAGGCCGTTGATCTCCCTTCAGATCCAACGGT
66 ATTTATATTATATCTAGGCCGTTGATCTCCCTCCAGATCCAACGGT
* *
1381106 GACATATCAATGGTCACCATTGGTTCGGCGGTGGAAACTTTTAACCATGTTAGTGTAAAACCCTA
1 GACATATCAATGGTCACCATTGGTTCGGCGGCGGAAACTTTTAACCATGTTAGGGTAAAACCCTA
* *
1381171 ATTTCTATTATATCTAGGTCGTTGATCTCCCTCCAGATCCAAC
66 ATTTATATTATATCTAGGCCGTTGATCTCCCTCCAGATCCAAC
1381214 AGTGGAGATT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 101 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (111 bp):
GACATATCAATGGTCACCATTGGTTCGGCGGCGGAAACTTTTAACCATGTTAGGGTAAAACCCTA
ATTTATATTATATCTAGGCCGTTGATCTCCCTCCAGATCCAACGGT
Found at i:1381458 original size:16 final size:16
Alignment explanation
Indices: 1381376--1381462 Score: 54
Period size: 16 Copynumber: 5.5 Consensus size: 16
1381366 ATTTTATTTA
*
1381376 TAATAACAATAGTAA-
1 TAATAACAATAATAAT
* *
1381391 T-ATAATAATCAACAAT
1 TAATAACAAT-AATAAT
* * * *
1381407 TACTAATAATGATTAT
1 TAATAACAATAATAAT
* *
1381423 TAATAATAATTAACAA-
1 TAATAACAA-TAATAAT
1381439 TAATAACAATAATAAT
1 TAATAACAATAATAAT
1381455 TAATAACA
1 TAATAACA
1381463 TCGGCTAATA
Statistics
Matches: 54, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
14 7 0.13
15 9 0.17
16 28 0.52
17 10 0.19
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.32
Consensus pattern (16 bp):
TAATAACAATAATAAT
Found at i:1381710 original size:18 final size:19
Alignment explanation
Indices: 1381683--1381718 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1381673 ATCATAGCAA
*
1381683 ATAATTATTTTT-TGTCAT
1 ATAATAATTTTTGTGTCAT
1381701 ATAATAATTTTTGTGTCA
1 ATAATAATTTTTGTGTCA
1381719 AATCCAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (19 bp):
ATAATAATTTTTGTGTCAT
Found at i:1387835 original size:14 final size:14
Alignment explanation
Indices: 1387816--1387852 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
1387806 GGCTATTGTC
1387816 TATGGAATATGGTT
1 TATGGAATATGGTT
1387830 TATGGAATATGGTT
1 TATGGAATATGGTT
1387844 TATGGAATA
1 TATGGAATA
1387853 ATGGAAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (14 bp):
TATGGAATATGGTT
Found at i:1387960 original size:44 final size:44
Alignment explanation
Indices: 1387843--1388046 Score: 309
Period size: 45 Copynumber: 4.6 Consensus size: 44
1387833 GGAATATGGT
* * *
1387843 TTATGGAATAATGGAAAGTGTATTGGTAAAATAAGCTTAAGAGC
1 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
1387887 TTATGGAACAAATGGTAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAA-TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1387932 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
1387976 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGTTTACGAGC
1 TTATGGAAT-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
1388021 TTATGGGATAAATGGTAAGTAGATTG
1 TTATGGAAT-AATGGTAAGTATATTG
1388047 ATAAGAAATG
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
44 51 0.34
45 99 0.66
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (44 bp):
TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:1387994 original size:89 final size:89
Alignment explanation
Indices: 1387843--1388046 Score: 327
Period size: 89 Copynumber: 2.3 Consensus size: 89
1387833 GGAATATGGT
* * *
1387843 TTATGGAATAATGGAAAGTGTATTGGTAAAATAAGCTTAAGAGCTTATGGAACAAATGGTAAGTG
1 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTAAGAGCTTATGGAACAAATGGTAAGTA
1387908 TATTGGTAAAATAAGCTTACGAGC
66 TATTGGTAAAATAAGCTTACGAGC
* *
1387932 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTA
1 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTAAGAGCTTATGGAACAAATGGTAAGTA
*
1387997 TATTGGTAAAATAAGTTTACGAGC
66 TATTGGTAAAATAAGCTTACGAGC
* *
1388021 TTATGGGATAAATGGTAAGTAGATTG
1 TTATGGAAT-AATGGTAAGTATATTG
1388047 ATAAGAAATG
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 91 0.86
90 15 0.14
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (89 bp):
TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTAAGAGCTTATGGAACAAATGGTAAGTA
TATTGGTAAAATAAGCTTACGAGC
Found at i:1388535 original size:14 final size:14
Alignment explanation
Indices: 1388516--1388547 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1388506 ACCGATACCC
1388516 TCATTGTTCACTAT
1 TCATTGTTCACTAT
*
1388530 TCATTGTTCACTTT
1 TCATTGTTCACTAT
1388544 TCAT
1 TCAT
1388548 GGTATTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.06, T:0.53
Consensus pattern (14 bp):
TCATTGTTCACTAT
Found at i:1392918 original size:15 final size:16
Alignment explanation
Indices: 1392898--1392930 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1392888 TTCTTTATCT
1392898 TTTTATT-TTTTTACA
1 TTTTATTATTTTTACA
*
1392913 TTTTATTATTTTTTCA
1 TTTTATTATTTTTACA
1392929 TT
1 TT
1392931 CCCTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTATTTTTACA
Found at i:1394842 original size:21 final size:21
Alignment explanation
Indices: 1394816--1394872 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
1394806 ACTACACTTG
1394816 AAGAAAATAAAAACAATA-AAA
1 AAGAAAATAAAAA-AATATAAA
*
1394837 AAG-AAATAAAGAAATATAAA
1 AAGAAAATAAAAAAATATAAA
*
1394857 AAGAAAAATAGAAAAA
1 AAG-AAAATAAAAAAA
1394873 GGAAAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.13
20 14 0.47
21 3 0.10
22 9 0.30
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (21 bp):
AAGAAAATAAAAAAATATAAA
Found at i:1394895 original size:24 final size:24
Alignment explanation
Indices: 1394868--1394952 Score: 136
Period size: 24 Copynumber: 3.5 Consensus size: 24
1394858 AGAAAAATAG
1394868 AAAAAGGAAAAAAGGAAAAAAGGA
1 AAAAAGGAAAAAAGGAAAAAAGGA
1394892 AAAAAGGAAAAAAGGAAAAAAGGA
1 AAAAAGGAAAAAAGGAAAAAAGGA
1394916 AAAAAGGAAAAAAAGGAAAAAA-GA
1 AAAAAGG-AAAAAAGGAAAAAAGGA
*
1394940 AAAAGAAGAAAAA
1 AAAA-AGGAAAAA
1394953 TAAAATTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
24 42 0.72
25 16 0.28
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (24 bp):
AAAAAGGAAAAAAGGAAAAAAGGA
Found at i:1394950 original size:16 final size:16
Alignment explanation
Indices: 1394854--1394952 Score: 123
Period size: 16 Copynumber: 6.2 Consensus size: 16
1394844 AAAGAAATAT
*
1394854 AAAAA-GAAAAATAG-
1 AAAAAGGAAAAAAAGA
*
1394868 AAAAAGGAAAAAAGGA
1 AAAAAGGAAAAAAAGA
*
1394884 AAAAAGGAAAAAAGGA
1 AAAAAGGAAAAAAAGA
*
1394900 AAAAAGGAAAAAAGGA
1 AAAAAGGAAAAAAAGA
1394916 AAAAAGGAAAAAAAGGA
1 AAAAAGGAAAAAAA-GA
1394933 AAAAA-GAAAAAGAAGA
1 AAAAAGGAAAAA-AAGA
1394949 AAAA
1 AAAA
1394953 TAAAATTAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
14 5 0.06
15 7 0.09
16 57 0.73
17 9 0.12
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (16 bp):
AAAAAGGAAAAAAAGA
Found at i:1394951 original size:8 final size:8
Alignment explanation
Indices: 1394868--1394943 Score: 136
Period size: 8 Copynumber: 9.5 Consensus size: 8
1394858 AGAAAAATAG
1394868 AAAAAGGA
1 AAAAAGGA
1394876 AAAAAGGA
1 AAAAAGGA
1394884 AAAAAGGA
1 AAAAAGGA
1394892 AAAAAGGA
1 AAAAAGGA
1394900 AAAAAGGA
1 AAAAAGGA
1394908 AAAAAGGA
1 AAAAAGGA
1394916 AAAAAGGAA
1 AAAAAGG-A
1394925 AAAAAGGA
1 AAAAAGGA
1394933 AAAAA-GA
1 AAAAAGGA
1394940 AAAA
1 AAAA
1394944 GAAGAAAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.09
8 53 0.79
9 8 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAAGGA
Found at i:1397786 original size:30 final size:30
Alignment explanation
Indices: 1397750--1397811 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
1397740 AGAGTCGAGG
*
1397750 GTTACCTATGTCCTTCGGAACATATGGATA
1 GTTACCTATGTCCTTCAGAACATATGGATA
*
1397780 GTTACCTATGTTCTTCAGAACATATGGATA
1 GTTACCTATGTCCTTCAGAACATATGGATA
1397810 GT
1 GT
1397812 AGTCCTTCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (30 bp):
GTTACCTATGTCCTTCAGAACATATGGATA
Found at i:1402692 original size:58 final size:57
Alignment explanation
Indices: 1402586--1402694 Score: 130
Period size: 58 Copynumber: 1.9 Consensus size: 57
1402576 TTTAAATTTA
* * **
1402586 TGTCCTTTATCTTTTTTATTTATATTTCAGTCTTTTACTTTTAAGCATTTACACTTT
1 TGTCCTTTATCTTTTTTATTTATATTTCAGCCCTTTAAATTTAAGCATTTACACTTT
* **
1402643 TGTCCTTTCAT-TTTTGTTATTTATTTTTCAGCCCTTTAAATTTCTGCATTTA
1 TGTCCTTT-ATCTTTT-TTATTTATATTTCAGCCCTTTAAATTTAAGCATTTA
1402695 TTATCCGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
57 12 0.28
58 31 0.72
ACGTcount: A:0.18, C:0.17, G:0.06, T:0.59
Consensus pattern (57 bp):
TGTCCTTTATCTTTTTTATTTATATTTCAGCCCTTTAAATTTAAGCATTTACACTTT
Found at i:1404971 original size:81 final size:81
Alignment explanation
Indices: 1404858--1405188 Score: 446
Period size: 81 Copynumber: 4.1 Consensus size: 81
1404848 AAGCATTTAG
* * * * *
1404858 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACACATTTCTGCCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATAC
1404923 ACAGCTAGACCAATAA
66 ACAGCTAGACCAATAA
* * * * * * *
1404939 TCTTTTACTAAAATGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTCTACCAATTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATAC
1405004 ACAGCTAGACCAATAA
66 ACAGCTAGACCAATAA
* *
1405020 TCTTTTACTCAAAGGTATTTAACCTTTCATCTACCTGGCATAATTGACACATTTCTGCCAAAGAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATAC
* *
1405085 ACAGCTAGGCCATTAA
66 ACAGCTAGACCAATAA
* ** *
1405101 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATACACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATAC
* * * *
1405166 ACAACTAGGCCATTAG
66 ACAGCTAGACCAATAA
1405182 TCTTTTA
1 TCTTTTA
1405189 TTTTAGAACA
Statistics
Matches: 219, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 219 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATAC
ACAGCTAGACCAATAA
Found at i:1405372 original size:54 final size:54
Alignment explanation
Indices: 1405313--1405762 Score: 600
Period size: 54 Copynumber: 8.4 Consensus size: 54
1405303 TATAATTTGT
* * **
1405313 GTGAGTTGCACACATAGTGCCAAAACGATTGTTCATCAACATATGATGAATTTT
1 GTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
* * * * **
1405367 TTGAGTTACACACAAAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTAT
1 GTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
* * * * *
1405421 GTGAGTTACACACACAATGCCGAAACGGTTGCTCATCAACATATGATGAATTCT
1 GTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
* *
1405475 GTGAGTTGCACACA-A-TGCTGAAACGGTTGTTCATCAACATATGACGAATTCC
1 GTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
* * * *
1405527 TTGAGTGGCACACATAGTGCCAAAACGGTTGTTCATCAACATGTGATGAATTCC
1 GTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
* * * **
1405581 ATGAGTTGCACACATAGTGTCGAAACGGTTGTTCATCAACATATGATAAATTAT
1 GTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
* *
1405635 GTGAGTTGCACACATAGTGCTGAAACGGTTGTTCATCAAAATATGATGAATTCC
1 GTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
* *
1405689 GTGAGTTACACACATAGTGTCG-AACGGTTGTTCATCAACATATGATGAATTCC
1 GTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
*
1405742 GAGAGTTGCACACATAGTGCC
1 GTGAGTTGCACACATAGTGCC
1405763 CATACGAAAA
Statistics
Matches: 348, Mismatches: 46, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
52 45 0.13
53 50 0.14
54 253 0.73
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (54 bp):
GTGAGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
Found at i:1405695 original size:214 final size:215
Alignment explanation
Indices: 1405313--1405762 Score: 663
Period size: 214 Copynumber: 2.1 Consensus size: 215
1405303 TATAATTTGT
***
1405313 GTGAGTTGCACACATAGTGCCAAAACGATTGTTCATCAACATATGATGAATTTTTTGAGTTACAC
1 GTGAGTTGCACACATAGTGCCAAAACGATTGTTCATCAACATATGATGAATTCCATGAGTTACAC
*
1405378 ACAAAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTATGTGAGTTACACACACAATGCCG
66 ACAAAGTGCCGAAACAGTTGTTCATCAACATATGATAAATTATGTGAGTTACACACACAATGCCG
* * *
1405443 AAACGGTTGCTCATCAACATATGATGAATTCTGTGAGTTGCACACA-A-TG-CTGAAACGGTTGT
131 AAACGGTTGCTCATCAAAATATGATGAATTCCGTGAGTTACACACATAGTGTC-G-AACGGTTGT
1405505 TCATCAACATATGACGAATTCC
194 TCATCAACATATGACGAATTCC
* * * * *
1405527 TTGAGTGGCACACATAGTGCCAAAACGGTTGTTCATCAACATGTGATGAATTCCATGAGTTGCAC
1 GTGAGTTGCACACATAGTGCCAAAACGATTGTTCATCAACATATGATGAATTCCATGAGTTACAC
* * * * * * *
1405592 ACATAGTGTCGAAACGGTTGTTCATCAACATATGATAAATTATGTGAGTTGCACACATAGTGCTG
66 ACAAAGTGCCGAAACAGTTGTTCATCAACATATGATAAATTATGTGAGTTACACACACAATGCCG
*
1405657 AAACGGTTGTTCATCAAAATATGATGAATTCCGTGAGTTACACACATAGTGTCGAACGGTTGTTC
131 AAACGGTTGCTCATCAAAATATGATGAATTCCGTGAGTTACACACATAGTGTCGAACGGTTGTTC
*
1405722 ATCAACATATGATGAATTCC
196 ATCAACATATGACGAATTCC
*
1405742 GAGAGTTGCACACATAGTGCC
1 GTGAGTTGCACACATAGTGCC
1405763 CATACGAAAA
Statistics
Matches: 209, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
214 156 0.75
215 49 0.23
216 3 0.01
217 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (215 bp):
GTGAGTTGCACACATAGTGCCAAAACGATTGTTCATCAACATATGATGAATTCCATGAGTTACAC
ACAAAGTGCCGAAACAGTTGTTCATCAACATATGATAAATTATGTGAGTTACACACACAATGCCG
AAACGGTTGCTCATCAAAATATGATGAATTCCGTGAGTTACACACATAGTGTCGAACGGTTGTTC
ATCAACATATGACGAATTCC
Found at i:1407862 original size:21 final size:21
Alignment explanation
Indices: 1407841--1407895 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1407831 TATGAACTTC
1407841 AACCATTTAATTTTCAATTTCA
1 AACC-TTTAATTTTCAATTTCA
1407863 AACCTTTAATTTTCAATTTCA
1 AACCTTTAATTTTCAATTTCA
1407884 AACCTTTAATTT
1 AACCTTTAATTT
1407896 GATTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (21 bp):
AACCTTTAATTTTCAATTTCA
Found at i:1408031 original size:2 final size:2
Alignment explanation
Indices: 1408026--1408056 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1408016 TATATCAAAT
1408026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1408057 TAAAAAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1411140 original size:15 final size:17
Alignment explanation
Indices: 1411108--1411144 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1411098 TTAATTATTC
1411108 AAAAA-ACTGAAAATAT
1 AAAAATACTGAAAATAT
1411124 AAAAATACT-AAAA-AT
1 AAAAATACTGAAAATAT
1411139 AAAAAT
1 AAAAAT
1411145 TAAATTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 9 0.45
17 3 0.15
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAAATACTGAAAATAT
Found at i:1411148 original size:22 final size:23
Alignment explanation
Indices: 1411108--1411163 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
1411098 TTAATTATTC
*
1411108 AAAAAACTGAAAATATAAAAATACT
1 AAAAAA-TAAAAATAT-AAAATACT
*
1411133 -AAAAATAAAAAT-TAAATTACT
1 AAAAAATAAAAATATAAAATACT
1411154 AAAAAATAAA
1 AAAAAATAAA
1411164 TATACATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 7 0.25
22 10 0.36
23 6 0.21
24 5 0.18
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (23 bp):
AAAAAATAAAAATATAAAATACT
Found at i:1411556 original size:25 final size:24
Alignment explanation
Indices: 1411520--1411566 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1411510 TACTTATCCA
*
1411520 AAATTTGTAAGTTTCAATTAATTT
1 AAATTTGTAAGTCTCAATTAATTT
*
1411544 AAATTTTTCAAGTCTCAATTAAT
1 AAATTTGT-AAGTCTCAATTAAT
1411567 CTAATAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (24 bp):
AAATTTGTAAGTCTCAATTAATTT
Found at i:1412386 original size:3 final size:3
Alignment explanation
Indices: 1412378--1412451 Score: 96
Period size: 3 Copynumber: 24.7 Consensus size: 3
1412368 CAATCTATCT
* * * *
1412378 TCA TCA TCA TCA CCA TCA TAA TTA CCA TCA TCA TCA TCA TCA TCA -CTA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC-A
1412426 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
1412452 GCCATCACCA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.02
3 60 0.97
4 1 0.02
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
TCA
Found at i:1412396 original size:12 final size:12
Alignment explanation
Indices: 1412379--1412462 Score: 84
Period size: 12 Copynumber: 7.2 Consensus size: 12
1412369 AATCTATCTT
1412379 CATCATCATCAC
1 CATCATCATCAC
* *
1412391 CATCATAATTAC
1 CATCATCATCAC
1412403 CATCATCAT---
1 CATCATCATCAC
1412412 CATCATCATCAC
1 CATCATCATCAC
* *
1412424 TATCATCATCAT
1 CATCATCATCAC
*
1412436 CATCATCATCAT
1 CATCATCATCAC
**
1412448 CATCGCCATCAC
1 CATCATCATCAC
1412460 CAT
1 CAT
1412463 TTATATGTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
9 9 0.15
12 51 0.85
ACGTcount: A:0.33, C:0.36, G:0.01, T:0.30
Consensus pattern (12 bp):
CATCATCATCAC
Found at i:1413178 original size:21 final size:22
Alignment explanation
Indices: 1413138--1413193 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
1413128 GAAACTCTTC
1413138 TTCTTCATTTTCTATTCCTTTG
1 TTCTTCATTTTCTATTCCTTTG
* * *
1413160 TTCTTTATTTT-TGTTCCTTTC
1 TTCTTCATTTTCTATTCCTTTG
* *
1413181 TTATTGATTTTCT
1 TTCTTCATTTTCT
1413194 CTCTTTAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.09, C:0.18, G:0.05, T:0.68
Consensus pattern (22 bp):
TTCTTCATTTTCTATTCCTTTG
Found at i:1416510 original size:30 final size:30
Alignment explanation
Indices: 1416474--1416546 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
1416464 TCCGAAGGAC
1416474 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1416504 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1416534 CTATCCATAGGTC
1 CTATCCAGAGGTC
1416547 CCGAAGAACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1416563 original size:30 final size:30
Alignment explanation
Indices: 1416474--1416573 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 30
1416464 TCCGAAGGAC
* *
1416474 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCACAAAGATCCTCGGTAA
* *
1416504 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCACAAAGATCCTCGGTAA
* * * *
1416534 CTATCCATAGGTCCCGAAGAACCTAGGTAAA
1 CTATCCATAGGTCACAAAGATCCTCGGT-AA
1416565 CTATCCATA
1 CTATCCATA
1416574 TGTTCCTTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 52 0.83
31 11 0.17
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (30 bp):
CTATCCATAGGTCACAAAGATCCTCGGTAA
Found at i:1416586 original size:31 final size:31
Alignment explanation
Indices: 1416532--1416624 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
1416522 GATCCTCGGT
* *
1416532 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
1416563 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
1416594 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
1416625 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:1420181 original size:15 final size:15
Alignment explanation
Indices: 1420149--1420179 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1420139 TTTATATTTT
1420149 AATTATATAATAAAA
1 AATTATATAATAAAA
1420164 AATTA-ATAATAAAA
1 AATTATATAATAAAA
1420178 AA
1 AA
1420180 ATCCATGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATTATATAATAAAA
Found at i:1426069 original size:74 final size:74
Alignment explanation
Indices: 1425948--1426098 Score: 302
Period size: 74 Copynumber: 2.0 Consensus size: 74
1425938 ATTATTAGCG
1425948 CAATACCCTGAGAAGACAAAATAGTACAAGTTTGAACTCTGCAATGCAAATCTTGCATCAAAATA
1 CAATACCCTGAGAAGACAAAATAGTACAAGTTTGAACTCTGCAATGCAAATCTTGCATCAAAATA
1426013 TTGTAAAAA
66 TTGTAAAAA
1426022 CAATACCCTGAGAAGACAAAATAGTACAAGTTTGAACTCTGCAATGCAAATCTTGCATCAAAATA
1 CAATACCCTGAGAAGACAAAATAGTACAAGTTTGAACTCTGCAATGCAAATCTTGCATCAAAATA
1426087 TTGTAAAAA
66 TTGTAAAAA
1426096 CAA
1 CAA
1426099 ACAAATAAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (74 bp):
CAATACCCTGAGAAGACAAAATAGTACAAGTTTGAACTCTGCAATGCAAATCTTGCATCAAAATA
TTGTAAAAA
Found at i:1430030 original size:16 final size:16
Alignment explanation
Indices: 1430011--1430042 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1430001 TTAAAGTTTA
1430011 AATTTTTATTTTGATT
1 AATTTTTATTTTGATT
1430027 AATTTTTATTTTGATT
1 AATTTTTATTTTGATT
1430043 CAATAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
AATTTTTATTTTGATT
Found at i:1432174 original size:21 final size:21
Alignment explanation
Indices: 1432148--1432203 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
1432138 ACTAAACTTC
1432148 CAAAAGGGAT-GTATCCCTTT-T
1 CAAAAGGGATCG-AT-CCTTTCT
1432169 CAAAA-GGATCGATCCTTTCT
1 CAAAAGGGATCGATCCTTTCT
*
1432189 CAAAAGGGACCGATC
1 CAAAAGGGATCGATC
1432204 TTTTTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 5 0.16
20 12 0.39
21 14 0.45
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
CAAAAGGGATCGATCCTTTCT
Found at i:1432206 original size:20 final size:19
Alignment explanation
Indices: 1432163--1432207 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
1432153 GGGATGTATC
*
1432163 CCTTTTCAAAAGGATCGAT
1 CCTTTTCAAAAGGACCGAT
1432182 CCTTTCTCAAAAGGGACCGAT
1 CCTTT-TCAAAA-GGACCGAT
1432203 -CTTTT
1 CCTTTT
1432208 TTTTTGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 10 0.43
21 7 0.30
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (19 bp):
CCTTTTCAAAAGGACCGAT
Found at i:1433705 original size:36 final size:38
Alignment explanation
Indices: 1433664--1433750 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 38
1433654 GATAAGCTCG
1433664 TAAGCTTATTTTACCAATATACTTGCCATTATTCCATAAGCTC
1 TAAGCTTATTTTACCAATATACTTGCCATTATTCC--AA---C
1433707 GTAAGCTTATTTTACCAATATACTTGCCATTATTCC-A-
1 -TAAGCTTATTTTACCAATATACTTGCCATTATTCCAAC
1433744 TAAGCTT
1 TAAGCTT
1433751 GTAAGCATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
36 7 0.16
41 1 0.02
44 35 0.81
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (38 bp):
TAAGCTTATTTTACCAATATACTTGCCATTATTCCAAC
Found at i:1433718 original size:44 final size:45
Alignment explanation
Indices: 1433511--1433764 Score: 361
Period size: 45 Copynumber: 5.7 Consensus size: 45
1433501 ATTTCATATA
* * *
1433511 ATTTA-TCCTATAAGCTCATAAGCTTATTCTACTAATATACTTACC
1 ATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
* *
1433556 ATTTATTCCATAAGCTAGTAAGCTTATTTTGCCAATATACTTACC
1 ATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
* *
1433601 ATTTACTCGATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
1 ATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
* * *
1433646 ATTTACTCGATAAGCTCGTAAGCTTATTTTACCAATATACTTGCC
1 ATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
*
1433691 A-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGCC
1 ATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
*
1433735 A-TTATTCCATAAGCTTGTAAGCATTATTTT
1 ATTTATTCCATAAGCTCGTAAGC-TTATTTT
1433765 CATGTTTACC
Statistics
Matches: 194, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
44 62 0.32
45 129 0.66
46 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (45 bp):
ATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACC
Found at i:1434916 original size:30 final size:31
Alignment explanation
Indices: 1434857--1434917 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1434847 CAACCATTCA
* * * *
1434857 CAACTTTTCCAAAGTTGCCAAATTGGTCCCC
1 CAACTTTTCAAAAATTGACAAAATGGTCCCC
1434888 CAACTTTTCAAAAATT-ACAAAATGGTCCCC
1 CAACTTTTCAAAAATTGACAAAATGGTCCCC
1434918 AAATTTTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.28
Consensus pattern (31 bp):
CAACTTTTCAAAAATTGACAAAATGGTCCCC
Found at i:1437796 original size:6 final size:6
Alignment explanation
Indices: 1437755--1437867 Score: 63
Period size: 6 Copynumber: 17.8 Consensus size: 6
1437745 GCATCTCTCA
* * *
1437755 TTTTT- TTTTTCC TTTTTA TTTTTC TTCTTCTTC TTTTTC TTTGTC TTTTTA
1 TTTTTC TTTTT-C TTTTTC TTTTTC -T-TT-TTC TTTTTC TTTTTC TTTTTC
* *
1437806 TTCTTTC -TATT- TTTTTC TTTCTAT- TTTATTC TTTTTC TTTTTT TCTTTTC
1 TT-TTTC TTTTTC TTTTTC TTT-T-TC TTT-TTC TTTTTC TTTTTC T-TTTTC
1437856 TTTTTC TATTTT
1 TTTTTC T-TTTT
1437868 TTTGCTCTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
5 10 0.12
6 39 0.46
7 28 0.33
8 4 0.05
9 3 0.04
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:1437848 original size:28 final size:29
Alignment explanation
Indices: 1437758--1437870 Score: 112
Period size: 28 Copynumber: 4.0 Consensus size: 29
1437748 TCTCTCATTT
*
1437758 TTTTTTTCCTTTT-TA-TTT-TTCTTCTTC
1 TTTTTTT-CTTTTCTATTTTATTCTTTTTC
* *
1437785 TTCTTTTTCTTTGTCT-TTTTATTCTTTCTA
1 TT-TTTTTCTTT-TCTATTTTATTCTTTTTC
1437815 TTTTTTTC-TTTCTATTTTATTCTTTTTC
1 TTTTTTTCTTTTCTATTTTATTCTTTTTC
*
1437843 TTTTTTTCTTTTCTTTTTCTATT-TTTTT
1 TTTTTTTCTTTTCTATTT-TATTCTTTTT
1437871 GCTCTTATGC
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
27 9 0.12
28 28 0.39
29 23 0.32
30 12 0.17
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.79
Consensus pattern (29 bp):
TTTTTTTCTTTTCTATTTTATTCTTTTTC
Found at i:1437854 original size:14 final size:14
Alignment explanation
Indices: 1437758--1437860 Score: 93
Period size: 14 Copynumber: 7.4 Consensus size: 14
1437748 TCTCTCATTT
*
1437758 TTTTTTTCCTTTT-
1 TTTTTTTCTTTTTC
* *
1437771 TATTTTTCTTCTTC
1 TTTTTTTCTTTTTC
*
1437785 TTCTTTTTCTTTGTC
1 TT-TTTTTCTTTTTC
* *
1437800 TTTTTATTCTTTCTA
1 TTTTT-TTCTTTTTC
* *
1437815 TTTTTTTCTTTCTA
1 TTTTTTTCTTTTTC
*
1437829 TTTTATTCTTTTTC
1 TTTTTTTCTTTTTC
1437843 TTTTTTTC-TTTTC
1 TTTTTTTCTTTTTC
1437856 TTTTT
1 TTTTT
1437861 CTATTTTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
13 20 0.27
14 31 0.41
15 24 0.32
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.79
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:1437868 original size:14 final size:14
Alignment explanation
Indices: 1437760--1437854 Score: 63
Period size: 13 Copynumber: 6.7 Consensus size: 14
1437750 TCTCATTTTT
*
1437760 TTTTTCCTTTT-TA
1 TTTTTCTTTTTCTA
* *
1437773 TTTTTCTTCTTCTTC
1 TTTTTCTTTTTC-TA
*
1437788 TTTTTCTTTGTCT-
1 TTTTTCTTTTTCTA
*
1437801 TTTTAT-TCTTTCTA
1 TTTT-TCTTTTTCTA
1437815 TTTTT-TTCTTTCTA
1 TTTTTCTT-TTTCTA
*
1437829 TTTTATTCTTTTTCTT
1 -TTT-TTCTTTTTCTA
1437845 TTTTTCTTTT
1 TTTTTCTTTT
1437855 CTTTTTCTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
13 20 0.31
14 19 0.29
15 17 0.26
16 7 0.11
17 2 0.03
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.78
Consensus pattern (14 bp):
TTTTTCTTTTTCTA
Found at i:1437876 original size:19 final size:19
Alignment explanation
Indices: 1437835--1437876 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1437825 TCTATTTTAT
**
1437835 TCTTTTTCTTTTTTTCTTT
1 TCTTTTTCTTTTTTTCTGC
1437854 TCTTTTTCTATTTTTT-TGC
1 TCTTTTTCT-TTTTTTCTGC
1437873 TCTT
1 TCTT
1437877 ATGCCATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (19 bp):
TCTTTTTCTTTTTTTCTGC
Found at i:1440743 original size:45 final size:45
Alignment explanation
Indices: 1440692--1441080 Score: 595
Period size: 45 Copynumber: 8.7 Consensus size: 45
1440682 AATTTCGTAT
* * *
1440692 CATTTA-TCCTATAAGCTCGCAAGCTTATTCTATCAATATACTTAC
1 CATTTACTCC-ATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
* * *
1440737 CATTTATTCCATAAGCTCATAATCTTATTTTACCAATATACTTAC
1 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
*
1440782 CATTTACTCCATCAGCTCGTAAGCTTATTTTACCAATATACTTAC
1 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
* * *
1440827 CATTTACTCTATAAGCTCGTAAGCTTATATTACTAATATACTTAC
1 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
1440872 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
1 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
*
1440917 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTTC
1 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
* * *
1440962 CA-TTATTCCATAAGCTCGTTAGCTTATTTTACCAATATATTTAC
1 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
*
1441006 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGC
1 CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
* *
1441051 CA-TTATTTCATAAGCTCGTAAGCTTATTTT
1 CATTTACTCCATAAGCTCGTAAGCTTATTTT
1441081 CATGTTTATC
Statistics
Matches: 315, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
44 66 0.21
45 246 0.78
46 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (45 bp):
CATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
Found at i:1443232 original size:30 final size:30
Alignment explanation
Indices: 1443188--1443272 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
1443178 TTGTAATTTT
* * *
1443188 CCAAAATTACATTTTGGTCCCTAAAC-TTT
1 CCAAATTTATATTTTGGTCCCTAAACGTTA
*
1443217 TCAAAGTTTATATTTTGGTCACC-AAACGTTA
1 CCAAA-TTTATATTTTGGTC-CCTAAACGTTA
* *
1443248 CCAAATTTATAATTTGGTCACTAAA
1 CCAAATTTATATTTTGGTCCCTAAA
1443273 TAAATCCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (30 bp):
CCAAATTTATATTTTGGTCCCTAAACGTTA
Found at i:1444783 original size:19 final size:19
Alignment explanation
Indices: 1444759--1444804 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
1444749 AGACGGAGTG
1444759 TATCGGTACACACCATGTT
1 TATCGGTACACACCATGTT
1444778 TATCGGTACACACCATGTT
1 TATCGGTACACACCATGTT
1444797 TATCGGTA
1 TATCGGTA
1444805 TATTAATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (19 bp):
TATCGGTACACACCATGTT
Found at i:1447152 original size:12 final size:13
Alignment explanation
Indices: 1447124--1447162 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
1447114 GAAAATAAAT
*
1447124 AAATAGTATAAATA
1 AAATA-TATAAAAA
1447138 AAATA-ATAAAAA
1 AAATATATAAAAA
1447150 AAATATATAAAAA
1 AAATATATAAAAA
1447163 TATAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 7 0.30
14 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAATATATAAAAA
Found at i:1447159 original size:21 final size:21
Alignment explanation
Indices: 1447103--1447170 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
1447093 CAAAGAAACT
1447103 AAAAATATAATGAAAATAAATAAA
1 AAAAATAT-AT-AAAAT-AATAAA
* ** *
1447127 TAGTATAAATAAAATAATAAA
1 AAAAATATATAAAATAATAAA
1447148 AAAAATATATAAAA-ATATAAA
1 AAAAATATATAAAATA-ATAAA
1447169 AA
1 AA
1447171 TGTATGTATA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.03
21 23 0.66
22 5 0.14
23 2 0.06
24 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (21 bp):
AAAAATATATAAAATAATAAA
Found at i:1447188 original size:43 final size:45
Alignment explanation
Indices: 1447103--1447191 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 45
1447093 CAAAGAAACT
*
1447103 AAAAATATAATGAAAATAAATAAATAGTATAAATAAAATAATAAA
1 AAAAATATAATAAAAATAAATAAATAGTATAAATAAAATAATAAA
** *
1447148 AAAAATAT-ATAAAAATATAA-AAAT-GTATGTATAATATAATAAA
1 AAAAATATAATAAAAATA-AATAAATAGTATAAATAAAATAATAAA
1447191 A
1 A
1447192 TACTAAATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 17 0.44
44 12 0.31
45 10 0.26
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (45 bp):
AAAAATATAATAAAAATAAATAAATAGTATAAATAAAATAATAAA
Found at i:1447374 original size:2 final size:2
Alignment explanation
Indices: 1447369--1447401 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1447359 AAAAATAATA
1447369 AT AT AT 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 AT AT AT A
1447402 ATAATAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1447470 original size:12 final size:12
Alignment explanation
Indices: 1447453--1447499 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
1447443 AAAAAATTAT
*
1447453 AATAAATAAATA
1 AATAAATATATA
1447465 AATAAA-ATATA
1 AATAAATATATA
*
1447476 ATTAAATATATA
1 AATAAATATATA
* *
1447488 CATATATATATA
1 AATAAATATATA
1447500 TATATATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
AATAAATATATA
Found at i:1447471 original size:23 final size:24
Alignment explanation
Indices: 1447436--1447483 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
1447426 ACGCAAAGAA
1447436 AAATGAAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAAA-TATAATTAAAT
*
1447460 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAAAAAAATATAATTAAAT
1447483 A
1 A
1447484 TATACATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (24 bp):
AAATGAAAAAAAATATAATTAAAT
Found at i:1447999 original size:37 final size:37
Alignment explanation
Indices: 1447906--1448007 Score: 141
Period size: 37 Copynumber: 2.8 Consensus size: 37
1447896 ATGCTTGTGG
* * ** * *
1447906 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
*
1447943 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
1447980 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
1448008 TAGGACGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:1448944 original size:106 final size:106
Alignment explanation
Indices: 1448760--1450172 Score: 2135
Period size: 106 Copynumber: 13.3 Consensus size: 106
1448750 GCATTGTTCC
* * * * *
1448760 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* ** * *
1448825 CCAGCCGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1448866 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
1448931 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1448972 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
1449037 CCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTTTCCG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1449078 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
1449143 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*** *
1449184 GAGTCCAATATCCTTCACAGTGAAGTTGAAATTGGCTCTGACATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1449249 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1449290 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTAGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
1449355 CCAGCGGTCCCTTCGTCGCGAAGTTGAACTTGCATTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1449396 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1449461 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1449502 GAGCCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1449567 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1449608 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1449673 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** * *
1449714 GAGTACAATATCCTTCCCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
1449779 CCAGCGGTCCCTTTGTCGTGAAATTGAACTTGCGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
1449820 GAGTCCAATATATTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTTTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
1449885 CCAACGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
1449926 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
1449991 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1450032 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * *
1450097 CCAATC-GTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CC-AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1450138 GAGTGGCACGATATCCTTCGTCGTGGAGTTGAAAT
1 GAGT--C-CAATATCCTTCGTTGTGAAGTTGAAAT
1450173 CGTGGTGAGG
Statistics
Matches: 1200, Mismatches: 103, Indels: 5
0.92 0.08 0.00
Matches are distributed among these distances:
106 1174 0.98
107 2 0.00
108 1 0.00
109 23 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1451113 original size:22 final size:22
Alignment explanation
Indices: 1451087--1451141 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1451077 TTGTGTTTGG
1451087 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1451109 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1451131 TCAAAGGTTTG
1 TCAAAGGTTTG
1451142 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1455079 original size:4 final size:4
Alignment explanation
Indices: 1455070--1455101 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
1455060 AATGTTAGTA
1455070 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1455102 GACGAAAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:1455257 original size:20 final size:20
Alignment explanation
Indices: 1455234--1455271 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1455224 TCTCCTTGCC
1455234 GGTGCCCCATTGGGCTTGAT
1 GGTGCCCCATTGGGCTTGAT
*
1455254 GGTGCCCCCTTGGGCTTG
1 GGTGCCCCATTGGGCTTG
1455272 CTAGACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.29, G:0.37, T:0.29
Consensus pattern (20 bp):
GGTGCCCCATTGGGCTTGAT
Found at i:1456143 original size:19 final size:19
Alignment explanation
Indices: 1456089--1456143 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
1456079 AACAAAAAAT
1456089 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
1456108 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
1456127 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
1456144 GAGGATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:1456277 original size:10 final size:12
Alignment explanation
Indices: 1456227--1456290 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 12
1456217 GCAAAGAAAT
1456227 TAAAAATATA-A
1 TAAAAATATATA
*
1456238 TGAAAATA-A-A
1 TAAAAATATATA
* *
1456248 TAAATAGTATAAA
1 TAAA-AATATATA
1456261 T-AAAATA-ATA
1 TAAAAATATATA
1456271 -AAAAATATATA
1 TAAAAATATATA
1456282 TAAAAATAT
1 TAAAAATAT
1456291 GAAAATGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
10 13 0.31
11 16 0.38
12 11 0.26
13 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (12 bp):
TAAAAATATATA
Found at i:1456289 original size:22 final size:20
Alignment explanation
Indices: 1456228--1456286 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
1456218 CAAAGAAATT
1456228 AAAAATATAATGAAAATAAATA
1 AAAAATATAAT-AAAAT-AATA
* *
1456250 AATAGTATAAATAAAATAATA
1 AAAAATAT-AATAAAATAATA
1456271 AAAAATATATATAAAA
1 AAAAATATA-ATAAAA
1456287 ATATGAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 16 0.52
22 11 0.35
23 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAAATATAATAAAATAATA
Found at i:1456295 original size:22 final size:21
Alignment explanation
Indices: 1456228--1456295 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
1456218 CAAAGAAATT
*
1456228 AAAAATATA-ATGAAAATA-A
1 AAAAATATATATAAAAATATA
* *
1456247 ATAAATAGTATAAATAAAATAATA
1 AAAAATA-TATATA-AAAAT-ATA
*
1456271 AAAAATATATATAAAAATATG
1 AAAAATATATATAAAAATATA
1456292 AAAA
1 AAAA
1456296 TGTATGTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 6 0.16
20 2 0.05
21 7 0.18
22 10 0.26
23 6 0.16
24 7 0.18
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAAATATATATAAAAATATA
Found at i:1456499 original size:11 final size:11
Alignment explanation
Indices: 1456480--1456533 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
1456470 GTAAACATAG
*
1456480 ATAAAATAATA
1 ATAATATAATA
1456491 ATAATATAAT-
1 ATAATATAATA
1456501 AT-ATATATATA
1 ATAATATA-ATA
1456512 ATAATAGTAA-A
1 ATAATA-TAATA
1456523 ATAATATAATA
1 ATAATATAATA
1456534 TAACGCAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
9 5 0.14
10 7 0.19
11 19 0.51
12 4 0.11
13 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
ATAATATAATA
Found at i:1456514 original size:21 final size:24
Alignment explanation
Indices: 1456480--1456536 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
1456470 GTAAACATAG
* * *
1456480 ATAAAATAATAATAATATAAT-AT
1 ATAATATAATAATAGTAAAATAAT
1456503 ATATATATAATAATAGTAAAATAAT
1 ATA-ATATAATAATAGTAAAATAAT
1456528 ATAATATAA
1 ATAATATAA
1456537 CGCAAACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.10
24 21 0.72
25 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
ATAATATAATAATAGTAAAATAAT
Found at i:1456526 original size:27 final size:26
Alignment explanation
Indices: 1456484--1456535 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
1456474 ACATAGATAA
*
1456484 AATAATAATAATATAATATATATATAT
1 AATAATAATAAAATAATATA-ATATAT
*
1456511 AATAATAGTAAAATAATATAATATA
1 AATAATAATAAAATAATATAATATA
1456536 ACGCAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (26 bp):
AATAATAATAAAATAATATAATATAT
Found at i:1456598 original size:2 final size:2
Alignment explanation
Indices: 1456591--1456641 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1456581 ATATAATTAA
1456591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1456633 AT AT AT AT A
1 AT AT AT AT A
1456642 ATAAGGGTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1457609 original size:13 final size:13
Alignment explanation
Indices: 1457591--1457629 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
1457581 ATCCTAATGG
1457591 ACAATTTTTGAAA
1 ACAATTTTTGAAA
*
1457604 ACAA-TTTTGTAA
1 ACAATTTTTGAAA
*
1457616 ACAATGTTTGAAA
1 ACAATTTTTGAAA
1457629 A
1 A
1457630 ATTATTATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (13 bp):
ACAATTTTTGAAA
Found at i:1460781 original size:39 final size:39
Alignment explanation
Indices: 1460708--1460790 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
1460698 AATCAACTAT
* * * *
1460708 ACTTATATGGACAACGAGAAGGTCGACTCATCCATGTTC
1 ACTTTTATGGACAACGAGAAGGTCAACTCATCCATATAC
* *
1460747 ACTTTTATGGACAACGAGATGGTCAACTCGTCCATATAC
1 ACTTTTATGGACAACGAGAAGGTCAACTCATCCATATAC
1460786 ACTTT
1 ACTTT
1460791 CACTTATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (39 bp):
ACTTTTATGGACAACGAGAAGGTCAACTCATCCATATAC
Found at i:1461740 original size:3 final size:3
Alignment explanation
Indices: 1461732--1461822 Score: 64
Period size: 3 Copynumber: 31.0 Consensus size: 3
1461722 CCGGTCTTAC
* *
1461732 TTA TTA TTA TTA ATA -TA TTA TTA TTA TATA TAA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA
* * * * * *
1461777 -TA CTA TTA TTA -TA TTA TTA ATA CTA TTA CTA CTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1461823 ATAATAATTA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
2 8 0.11
3 58 0.81
4 6 0.08
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:1461794 original size:8 final size:8
Alignment explanation
Indices: 1461732--1461795 Score: 53
Period size: 8 Copynumber: 7.8 Consensus size: 8
1461722 CCGGTCTTAC
1461732 TTATTATTA
1 TTATTA-TA
*
1461741 TTAATATA
1 TTATTATA
1461749 TTA-T-TA
1 TTATTATA
1461755 TTATATATAA
1 TTAT-TAT-A
1461765 TTATATATA
1 TTAT-TATA
1461774 TTA-TACTA
1 TTATTA-TA
1461782 TTATTATA
1 TTATTATA
1461790 TTATTA
1 TTATTA
1461796 ATACTATTAC
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
6 5 0.10
7 3 0.06
8 19 0.40
9 12 0.25
10 9 0.19
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:1461825 original size:27 final size:25
Alignment explanation
Indices: 1461733--1461825 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 25
1461723 CGGTCTTACT
*
1461733 TATTATTATTAATATATTAT--TAT
1 TATTATTATTAATATATTATACTAA
* *
1461756 TATATATAATTATATATATTATACTAT
1 TAT-TATTATTA-ATATATTATACTAA
1461783 TATTATATTATTAATACTATTACTACTAA
1 TA-T-TATTATTAATA-TATTA-TACTAA
1461812 TATTATTATTAATA
1 TATTATTATTAATA
1461826 ATAATTACAA
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.05
24 7 0.12
25 9 0.15
27 19 0.32
28 15 0.25
29 7 0.12
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
TATTATTATTAATATATTATACTAA
Found at i:1462855 original size:19 final size:19
Alignment explanation
Indices: 1462822--1462858 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1462812 TAAAATCAGG
1462822 TTTTTTGTATATTTTAATT
1 TTTTTTGTATATTTTAATT
1462841 TTTTATTGTAT-TTTTAAT
1 TTTT-TTGTATATTTTAAT
1462859 ATTTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTTGTATATTTTAATT
Found at i:1462863 original size:18 final size:20
Alignment explanation
Indices: 1462826--1462864 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
1462816 ATCAGGTTTT
*
1462826 TTGTATATTTTAATTTTTTA
1 TTGTATATTTTAATTATTTA
1462846 TTGTAT-TTTTAA-TATTTA
1 TTGTATATTTTAATTATTTA
1462864 T
1 T
1462865 ATTTTAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 6 0.33
20 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TTGTATATTTTAATTATTTA
Found at i:1462867 original size:20 final size:20
Alignment explanation
Indices: 1462826--1462867 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1462816 ATCAGGTTTT
*
1462826 TTGTATATTTTAATTTTTTA
1 TTGTATATTTTAATTTTATA
1462846 TTGTAT-TTTTAATATTTATA
1 TTGTATATTTTAAT-TTTATA
1462866 TT
1 TT
1462868 TTAGTCACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TTGTATATTTTAATTTTATA
Found at i:1470526 original size:99 final size:99
Alignment explanation
Indices: 1470350--1470576 Score: 382
Period size: 99 Copynumber: 2.3 Consensus size: 99
1470340 CACGGATTTG
* * * ** * *
1470350 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTTTCATGAAAATGATAAAGCGA
1 TAAATCCTCCGGGTGATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGAGA
1470415 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
*
1470449 TTAATCCTCCGGGTGATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGAGA
1 TAAATCCTCCGGGTGATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGAGA
1470514 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
1470548 TAAATCCTCCGGGTGATTTGTAAAACCTC
1 TAAATCCTCCGGGTGATTTGTAAAACCTC
1470577 CAGGTCATCT
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 119 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (99 bp):
TAAATCCTCCGGGTGATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGAGA
TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
Found at i:1470665 original size:119 final size:118
Alignment explanation
Indices: 1470467--1470730 Score: 474
Period size: 119 Copynumber: 2.2 Consensus size: 118
1470457 CCGGGTGATT
1470467 TGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGAGATTTTCAAAGTTTCTCATT
1 TGTAAAACCTCA-GGTAGGATGTTTTCGCATGAAAATGAGAAAGAGATTTTCAAAGTTTCTCATT
1470532 TAATGTTCTAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTCCAGGTCATC
65 TAATGTTCTAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTCCAGGTCATC
*
1470586 TGTAAAACCTCAGTGTAGGATGTTTTCGCATGAAAATGAGAAAGTGATTTTCAAAGTTTCTCATT
1 TGTAAAACCTCAG-GTAGGATGTTTTCGCATGAAAATGAGAAAGAGATTTTCAAAGTTTCTCATT
* *
1470651 TAATGTTCTAGAAAATTAAATCCTTCGGGTGATTTGTAAAACCTCCGGGTCATC
65 TAATGTTCTAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTCCAGGTCATC
1470705 TGTAAAACCTCCAGGTAGGATGTTTT
1 TGTAAAACCT-CAGGTAGGATGTTTT
1470731 TATTTTTGAT
Statistics
Matches: 140, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
118 1 0.01
119 136 0.97
120 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (118 bp):
TGTAAAACCTCAGGTAGGATGTTTTCGCATGAAAATGAGAAAGAGATTTTCAAAGTTTCTCATTT
AATGTTCTAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTCCAGGTCATC
Found at i:1470886 original size:3 final size:3
Alignment explanation
Indices: 1470863--1470953 Score: 55
Period size: 3 Copynumber: 31.0 Consensus size: 3
1470853 CCAGTCTTAC
* * *
1470863 TTA TTA CTA TTA ATA -TA TTA TTA TTA -TA TATA TAA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA
* * * * * *
1470908 -TA CTA TTA TTA -TA TTA TTA ATA CTA TTA CTA CTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1470954 ATAATAATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
2 8 0.11
3 57 0.80
4 6 0.08
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.54
Consensus pattern (3 bp):
TTA
Found at i:1470904 original size:8 final size:7
Alignment explanation
Indices: 1470870--1470924 Score: 62
Period size: 6 Copynumber: 7.9 Consensus size: 7
1470860 TACTTATTAC
1470870 TATTAATA
1 TATT-ATA
1470878 TATTAT-
1 TATTATA
1470884 TATTATA
1 TATTATA
1470891 TA-TATA
1 TATTATA
1470897 -ATTATA
1 TATTATA
1470903 TATTATA
1 TATTATA
1470910 CTATTATTA
1 -TATTA-TA
1470919 TATTAT
1 TATTAT
1470925 TAATACTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
5 1 0.02
6 14 0.33
7 11 0.26
8 14 0.33
9 2 0.05
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (7 bp):
TATTATA
Found at i:1470917 original size:30 final size:32
Alignment explanation
Indices: 1470865--1470964 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 32
1470855 AGTCTTACTT
* *
1470865 ATTACTATTAATATATTATTATTATATATATA
1 ATTACTATTACTATACTATTATTATATATATA
*
1470897 ATTA-TA-TATTATACTATTATTATAT-TATTA
1 ATTACTATTACTATACTATTATTATATATA-TA
1470927 A-TACTATTACTACTACTATTATTAT-TAATAATA
1 ATTACTATTACTA-TACTATTATTATAT-AT-ATA
1470960 ATTAC
1 ATTAC
1470965 AAGCCCAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
29 4 0.07
30 22 0.39
31 7 0.12
32 16 0.28
33 4 0.07
34 4 0.07
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (32 bp):
ATTACTATTACTATACTATTATTATATATATA
Found at i:1470925 original size:8 final size:8
Alignment explanation
Indices: 1470863--1470926 Score: 53
Period size: 8 Copynumber: 7.8 Consensus size: 8
1470853 CCAGTCTTAC
1470863 TTATTACTA
1 TTATTA-TA
*
1470872 TTAATATA
1 TTATTATA
1470880 TTATTAT-
1 TTATTATA
1470887 TATATATATAA
1 T-TAT-TAT-A
1470898 TTA-TATA
1 TTATTATA
1470905 TTA-TACTA
1 TTATTA-TA
1470913 TTATTATA
1 TTATTATA
1470921 TTATTA
1 TTATTA
1470927 ATACTATTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
7 7 0.15
8 27 0.57
9 10 0.21
10 2 0.04
11 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:1474817 original size:82 final size:82
Alignment explanation
Indices: 1474717--1474886 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
1474707 TGGTGAAGCA
1474717 AACCCAAAGAATGGTGATACTCGACCCTCACGCCCTATCAAACCAAACATCGACCAACAAACTCA
1 AACCCAAAGAATGGTGATACTCGACCCTCACGCCCTATCAAACCAAACATCGACCAACAAACTCA
1474782 ACCAACATGGATTCAGC
66 ACCAACATGGATTCAGC
*
1474799 AACCCAAAGAATGGTGATACTCGACCCTCACGCCCTGTCAAACCAAACATCGACCAACAAACTCA
1 AACCCAAAGAATGGTGATACTCGACCCTCACGCCCTATCAAACCAAACATCGACCAACAAACTCA
1474864 ACCAACATGGATTCAGC
66 ACCAACATGGATTCAGC
1474881 AACCCA
1 AACCCA
1474887 TACTCTTTTA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.39, C:0.35, G:0.12, T:0.14
Consensus pattern (82 bp):
AACCCAAAGAATGGTGATACTCGACCCTCACGCCCTATCAAACCAAACATCGACCAACAAACTCA
ACCAACATGGATTCAGC
Found at i:1479491 original size:55 final size:55
Alignment explanation
Indices: 1479407--1479723 Score: 372
Period size: 55 Copynumber: 5.7 Consensus size: 55
1479397 GAGTGTGCAA
*
1479407 AAACTTAAGAAATTCATACTAATTGGATGAATTTCCGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* *
1479462 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGAACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* * *
1479517 AAACTTAAGAAATTCATACTAAGTGGATAAATTTTCATATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* * * * *
1479572 AAACTTAAGAAATTCATAAC-GAGAT-TATGAATTTCCGTATGGACACTTTGTGTGCAA
1 AAACTTAAGAAATTCAT-ACTAAG-TGGATGAATTTCCGTATGGGCACTTTATGTG--T
* * ** * *
1479629 AAAC-TAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTG--T
* **
1479685 AAAC-TAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTAT
1479724 TGGTAGTGGA
Statistics
Matches: 239, Mismatches: 17, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
55 148 0.62
56 87 0.36
57 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
Found at i:1479976 original size:81 final size:81
Alignment explanation
Indices: 1479871--1480039 Score: 241
Period size: 81 Copynumber: 2.1 Consensus size: 81
1479861 AAATCTAAAA
* * * *
1479871 TAAAATATTAATAGCCTAGATGTGCATTTGGTAG-AAAGATGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATAGCCTAGATGTGCATTTGGCAGAAAAG-TGTCAATCATGCAAGTTAGATGAAA
*
1479935 GGTTAAATGCCTTTGAG
65 GGCTAAATGCCTTTGAG
* * *
1479952 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAAGTTTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGATGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATGAAAG
*
1480017 GCTAAATGCCTTTGGG
66 GCTAAATGCCTTTGAG
1480033 TAAAAGA
1 TAAAAGA
1480040 CTAAAGGAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 74 0.95
82 4 0.05
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (81 bp):
TAAAAGATTAATAGCCTAGATGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATGAAAG
GCTAAATGCCTTTGAG
Found at i:1481655 original size:42 final size:42
Alignment explanation
Indices: 1481591--1481700 Score: 168
Period size: 42 Copynumber: 2.6 Consensus size: 42
1481581 TGACTTTCGA
* *
1481591 AGCAAAGCTCAA-CAACCAACCTTACCCCGTATTTTTCTCAG
1 AGCAAAGCTCAATGAACCAACCTTACCCCGTATATTTCTCAG
* *
1481632 AGTAAAGCTCAATGCACCAACCTTACCCCGTATATTTCTCAG
1 AGCAAAGCTCAATGAACCAACCTTACCCCGTATATTTCTCAG
*
1481674 AGCAAAGCTCAATGAACTAACCTTACC
1 AGCAAAGCTCAATGAACCAACCTTACC
1481701 TCATATAATC
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
41 11 0.18
42 50 0.82
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.24
Consensus pattern (42 bp):
AGCAAAGCTCAATGAACCAACCTTACCCCGTATATTTCTCAG
Done.