Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_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: 2791265
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 14
Found at i:1435817 original size:18 final size:18
Alignment explanation
Indices: 1435788--1435860 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
1435778 ACTGAATATT
*
1435788 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
1435806 TGTCCCGGAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
1435825 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
*
1435844 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1435861 GATAATATCT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 29 0.64
19 2 0.04
20 14 0.31
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1436520 original size:63 final size:64
Alignment explanation
Indices: 1436431--1436574 Score: 159
Period size: 63 Copynumber: 2.3 Consensus size: 64
1436421 ATCCCTTAAC
* * *
1436431 GGGTGCATCGATGCACTAACTATGCATCGGTACA-TAAATCCCATTCGATGTTTGTATTTT-AGG
1 GGGTGCATCGATGCACTAACTATGCATCGATACACT-AATCACATTCGATGTTTGTATTTTAAAG
* * * * *
1436494 GGGTGCATCGATGCAC-CACTTGTGCATCGATACACTGATGACATTCGATGTTTTTATTTTAAAG
1 GGGTGCATCGATGCACTAAC-TATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
* *
1436558 GAGTGCATCGATACACT
1 GGGTGCATCGATGCACT
1436575 TCATGTGCAT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
62 2 0.03
63 48 0.72
64 17 0.25
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (64 bp):
GGGTGCATCGATGCACTAACTATGCATCGATACACTAATCACATTCGATGTTTGTATTTTAAAG
Found at i:1445452 original size:23 final size:24
Alignment explanation
Indices: 1445422--1445492 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 24
1445412 GACATTTTAT
1445422 ATGGCACTTCGGTGCATTTCTACG
1 ATGGCACTTCGGTGCATTTCTACG
* * *
1445446 AT-GCACTTCGGTGTAATTCTATG
1 ATGGCACTTCGGTGCATTTCTACG
* *
1445469 -TGGTACTTCGGTGCATTTATACG
1 ATGGCACTTCGGTGCATTTCTACG
1445492 A
1 A
1445493 GCTGTGGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.03
23 34 0.92
24 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (24 bp):
ATGGCACTTCGGTGCATTTCTACG
Found at i:1447748 original size:91 final size:91
Alignment explanation
Indices: 1447592--1447773 Score: 348
Period size: 91 Copynumber: 2.0 Consensus size: 91
1447582 CCTGGAAGTT
1447592 AAATCGATTTATCATAGTATTTTTATTTTACTTGTTCATATTTTCTTTTTAGTTAGCTTTATATT
1 AAATCGATTTATCATAGTATTTTTATTTTACTTGTTCATATTTTCTTTTTAGTTAGCTTTATA-T
1447657 TTTTTTACTTTCCTTAATTTTTCTTCA
65 TTTTTTACTTTCCTTAATTTTTCTTCA
1447684 AAATCGATTTATCATAGTA-TTTTATTTTACTTGTTCATATTTTCTTTTTAGTTAGCTTTATATT
1 AAATCGATTTATCATAGTATTTTTATTTTACTTGTTCATATTTTCTTTTTAGTTAGCTTTATATT
1447748 TTTTTACTTTCCTTAATTTTTCTTCA
66 TTTTTACTTTCCTTAATTTTTCTTCA
1447774 TTTATTTCTA
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
90 28 0.31
91 43 0.48
92 19 0.21
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.60
Consensus pattern (91 bp):
AAATCGATTTATCATAGTATTTTTATTTTACTTGTTCATATTTTCTTTTTAGTTAGCTTTATATT
TTTTTACTTTCCTTAATTTTTCTTCA
Found at i:1454662 original size:18 final size:18
Alignment explanation
Indices: 1454639--1454676 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
1454629 GAGAGTCCCC
1454639 AGCCTGCTGA-ACCTGAAG
1 AGCCTGCTGACA-CTGAAG
1454657 AGCCTGCTGACACTGAAG
1 AGCCTGCTGACACTGAAG
1454675 AG
1 AG
1454677 ACCGATGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.16
Consensus pattern (18 bp):
AGCCTGCTGACACTGAAG
Found at i:1463727 original size:64 final size:63
Alignment explanation
Indices: 1463658--1463816 Score: 203
Period size: 64 Copynumber: 2.5 Consensus size: 63
1463648 TGCACTAAGA
* * * * *
1463658 GTGCATCAATGCATGAAGTGCATTCGATGTTTCA-AACAAGCCCAAGTGCATCGATGCATGGTCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCATAA-AA-CCCAAGTACATCGATGCATGGTAT
**
1463722 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTACATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAACCCAAGTACATCGATGCATGGTAT
* *
1463786 ATGTATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
1463817 CAATTTATTC
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
63 2 0.02
64 73 0.87
65 7 0.08
66 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCATAAAACCCAAGTACATCGATGCATGGTAT
Found at i:1465307 original size:23 final size:23
Alignment explanation
Indices: 1465281--1465364 Score: 77
Period size: 22 Copynumber: 3.7 Consensus size: 23
1465271 CAAAACCCCC
*
1465281 AGGGGGTATCGATTCCCCTACAA
1 AGGGGGTATCGATTCCCCTTCAA
* * *
1465304 A-GGGGAATCGAATCCTCTTCAA
1 AGGGGGTATCGATTCCCCTTCAA
*
1465326 AGGGGG-ATTCGGTTCCCCTTC--
1 AGGGGGTA-TCGATTCCCCTTCAA
1465347 AGGAGGGTATCGATTCCC
1 AGG-GGGTATCGATTCCC
1465365 TCTGCACCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
21 3 0.06
22 30 0.61
23 16 0.33
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.24
Consensus pattern (23 bp):
AGGGGGTATCGATTCCCCTTCAA
Found at i:1468488 original size:65 final size:64
Alignment explanation
Indices: 1468328--1468514 Score: 184
Period size: 65 Copynumber: 2.9 Consensus size: 64
1468318 ATTCACCAAT
** * **
1468328 CCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGTATTTCATGCATCGATGCACAT
1 CCATGCATCGATGCACTCA-GGAATCTA-TGAAACATAGAATACATTTCATGCATCGATGCACAT
1468391 A
64 A
** *
1468392 CCATGCATCGATGCACTCAGGGTTTTATGAAAACATAGAATACATTTCATGCATCGATGCACCA-
1 CCATGCATCGATGCACTCAGGAATCTATG-AAACATAGAATACATTTCATGCATCGATGCA-CAT
*
1468456 G
64 A
* * * *
1468457 CCATGCATCGATGCACTCAGGCAATCT-TGAAACATCGAATGCATTTTATGCATTGATG
1 CCATGCATCGATGCACTCAGG-AATCTATGAAACATAGAATACATTTCATGCATCGATG
1468515 AACTCTTAGT
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
63 2 0.02
64 45 0.44
65 52 0.50
66 4 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (64 bp):
CCATGCATCGATGCACTCAGGAATCTATGAAACATAGAATACATTTCATGCATCGATGCACATA
Found at i:1474368 original size:21 final size:22
Alignment explanation
Indices: 1474339--1474397 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
1474329 TGCATCCCCT
1474339 TGAATGTGCATCGATACA-CCA
1 TGAATGTGCATCGATACAGCCA
* * * *
1474360 TGAAGGTGCACCGATGCATGCCT
1 TGAATGTGCATCGATACA-GCCA
1474383 TGAATGTGCATCGAT
1 TGAATGTGCATCGAT
1474398 GTATCCATCG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 15 0.50
23 15 0.50
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (22 bp):
TGAATGTGCATCGATACAGCCA
Found at i:1474391 original size:23 final size:22
Alignment explanation
Indices: 1474320--1474403 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 22
1474310 ACACCTAACA
1474320 GTGCATCGATGCATCCCCTTGAAT
1 GTGCATCGATGCAT--CCTTGAAT
* * *
1474344 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
*
1474365 GTGCACCGATGCATGCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
*
1474388 GTGCATCGATGTATCC
1 GTGCATCGATGCATCC
1474404 ATCGGGTTTG
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
21 17 0.35
22 2 0.04
23 18 0.37
24 12 0.24
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:1476692 original size:24 final size:24
Alignment explanation
Indices: 1476662--1476721 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
1476652 TAACAAAAAG
1476662 GGGGAGAAGTGTAAAAGTGTTAAA
1 GGGGAGAAGTGTAAAAGTGTTAAA
1476686 GGGGAGAAGTGTAAAAGTGTTAAA
1 GGGGAGAAGTGTAAAAGTGTTAAA
*
1476710 AGGGAGAAGTGT
1 GGGGAGAAGTGT
1476722 TAGAGTAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (24 bp):
GGGGAGAAGTGTAAAAGTGTTAAA
Found at i:1477177 original size:65 final size:63
Alignment explanation
Indices: 1477055--1477262 Score: 226
Period size: 65 Copynumber: 3.2 Consensus size: 63
1477045 TTTCAAAGTG
* * * **
1477055 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-C-AGCCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATT
1477118 TC
62 TC
*
1477120 ATGCATCGATGCACATGCCATGCATCGATGCACTCAGGGT-TTTATGAAA-ATAACGAATGCATT
1 ATGCATCGATGCACA-GCCATGCATCGATGCACTCAGGCTATTT-TGAAACAT--CGAATGCATT
*
1477183 TG
62 TC
* *
1477185 ATGCATCGATGCACCAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGTATTTT
1 ATGCATCGATGCA-CAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
1477249 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1477263 TCTTAGTGCA
Statistics
Matches: 125, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
62 1 0.01
63 7 0.06
64 44 0.35
65 66 0.53
66 7 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCACAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
Found at i:1477278 original size:129 final size:130
Alignment explanation
Indices: 1477053--1477288 Score: 311
Period size: 129 Copynumber: 1.8 Consensus size: 130
1477043 ATTTTCAAAG
*
1477053 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATAAATTGAACATCGAATGCATT
1 TGATGCACCGATGCACCAAGCCATGCATCGATGCACCATGGAATAAATTGAACATCGAATGCATT
* *
1477118 TCATGCATCGATGCACATGCCATGCATCGATGCACTCAGGGTTTTATGAAAATAACGAATGCATT
66 TCATGCATCGATGCACATGCCATGCACCGATGCACTAAGGGTTTTATGAAAATAACGAATGCATT
* * ** *
1477183 TGATGCATCGATGCACC-AGCCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGTA
1 TGATGCACCGATGCACCAAGCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCA
* *
1477245 TTTTATGCATCGATGCAC-T-CTTAGTGCACCGATGCACTAAGGGT
64 TTTCATGCATCGATGCACATGC-CA-TGCACCGATGCACTAAGGGT
1477289 CCAACAGTCA
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
127 1 0.01
128 7 0.08
129 66 0.72
130 18 0.20
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (130 bp):
TGATGCACCGATGCACCAAGCCATGCATCGATGCACCATGGAATAAATTGAACATCGAATGCATT
TCATGCATCGATGCACATGCCATGCACCGATGCACTAAGGGTTTTATGAAAATAACGAATGCATT
Found at i:1479379 original size:118 final size:118
Alignment explanation
Indices: 1479158--1479380 Score: 281
Period size: 118 Copynumber: 1.9 Consensus size: 118
1479148 CTTTCAAAAC
* *
1479158 AAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTT
1 AAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
* *
1479223 CATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTG
66 CATTTTGATTTTCAAAATCCATTTTCCTTTCTAAAAGAAGTTTGTTTAATTTG
* * * * *
1479276 AAAAATTTCTTTTTCAA-AGTTTTCAGATTTTATTTTTGAAAGCTCTAACT-CTTTTCTCAACAT
1 AAAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAACAT
* * **
1479339 TTCATTTTGATTTTCCAAGTCTGTTTTACCTTTC-AAAAGAAG
64 TTCATTTTGATTTTCAAAATCCATTTT-CCTTTCTAAAAGAAG
1479381 ATCATTTTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
117 5 0.06
118 79 0.89
119 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.48
Consensus pattern (118 bp):
AAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
CATTTTGATTTTCAAAATCCATTTTCCTTTCTAAAAGAAGTTTGTTTAATTTG
Found at i:1480793 original size:64 final size:64
Alignment explanation
Indices: 1480707--1480829 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
1480697 TGCACTAAGA
* * *
1480707 GTGCATCGATGCATGAAGTGCATTCGCTG-TTTCA-AACAAGCCTGAGTGCATCGACGCATGGTC
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCTGAGTGCATCGACGCATGGTC
1480770 T
64 T
*
1480771 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGACGCAT
1480830 AAAATGCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
64 44 0.83
65 7 0.13
66 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGACGCATGGTCT
Found at i:1481883 original size:29 final size:29
Alignment explanation
Indices: 1481803--1481871 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
1481793 ACTGCTCAGG
*
1481803 CCCCTAATTTTTTATATTTATCATTAGGA
1 CCCCTAATTTTTTATATTTATAATTAGGA
* *
1481832 CCCCCAATTTTTTATATTTATAATTAGGG
1 CCCCTAATTTTTTATATTTATAATTAGGA
*
1481861 TCCCTAATTTT
1 CCCCTAATTTT
1481872 ATAATTTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (29 bp):
CCCCTAATTTTTTATATTTATAATTAGGA
Found at i:1482007 original size:19 final size:19
Alignment explanation
Indices: 1481957--1482008 Score: 50
Period size: 22 Copynumber: 2.6 Consensus size: 19
1481947 AATCATATTT
* *
1481957 TTCTTTATTTTACCAAATC
1 TTCTTTAATTTACCAAATA
*
1481976 TTACTCTTCAATTTATCAAATA
1 TT-CT-TT-AATTTACCAAATA
1481998 TTCTTTAATTT
1 TTCTTTAATTT
1482009 TTAGTCTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 7 0.26
20 4 0.15
21 4 0.15
22 12 0.44
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (19 bp):
TTCTTTAATTTACCAAATA
Found at i:1484140 original size:10 final size:10
Alignment explanation
Indices: 1484125--1484199 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
1484115 CATTTAATAA
1484125 ATAAACGAAC
1 ATAAACGAAC
1484135 ATAAACGAAC
1 ATAAACGAAC
1484145 ----ACGAAC
1 ATAAACGAAC
1484151 ATAAACGAAC
1 ATAAACGAAC
* *
1484161 ATGAAC-ATAA
1 ATAAACGA-AC
1484171 ATGAACACGAAC
1 AT-AA-ACGAAC
1484183 ATAAACGAAC
1 ATAAACGAAC
*
1484193 ATCAACG
1 ATAAACG
1484200 TTGGAGACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 36 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.56, C:0.21, G:0.12, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1484150 original size:16 final size:16
Alignment explanation
Indices: 1484129--1484193 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
1484119 TAATAAATAA
1484129 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1484145 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
1484161 ATGAACATAAATGAAC
1 ACGAACATAAACGAAC
1484177 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1484193 A
1 A
1484194 TCAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:1485208 original size:24 final size:24
Alignment explanation
Indices: 1485180--1485254 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
1485170 GATTGGGTTA
*
1485180 AACATAAATGAAAGAACATAAACG
1 AACATAAATGAACGAACATAAACG
1485204 AACAT-AATCGAACGAACATAAACG
1 AACATAAAT-GAACGAACATAAACG
** *
1485228 AACATAACCGAACGAACATAACCG
1 AACATAAATGAACGAACATAAACG
1485252 AAC
1 AAC
1485255 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.07
24 41 0.91
25 1 0.02
ACGTcount: A:0.56, C:0.21, G:0.12, T:0.11
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAACG
Found at i:1485217 original size:14 final size:14
Alignment explanation
Indices: 1485200--1485255 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
1485190 AAAGAACATA
*
1485200 AACGAACATAATCG
1 AACGAACATAACCG
1485214 AACGAACAT-A---
1 AACGAACATAACCG
1485224 AACGAACATAACCG
1 AACGAACATAACCG
1485238 AACGAACATAACCG
1 AACGAACATAACCG
1485252 AACG
1 AACG
1485256 TTCACGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.52, C:0.25, G:0.14, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:1485254 original size:10 final size:10
Alignment explanation
Indices: 1485193--1485240 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
1485183 ATAAATGAAA
1485193 GAACATAAAC
1 GAACATAAAC
1485203 GAACATAATCGAAC
1 GAACAT-A---AAC
1485217 GAACATAAAC
1 GAACATAAAC
*
1485227 GAACATAACC
1 GAACATAAAC
1485237 GAAC
1 GAAC
1485241 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:1485265 original size:24 final size:24
Alignment explanation
Indices: 1485193--1485254 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
1485183 ATAAATGAAA
*
1485193 GAACATAAACGAACATAATCGAAC
1 GAACATAAACGAACATAACCGAAC
1485217 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
1485241 GAACATAACCGAAC
1 GAACATAAACGAAC
1485255 GTTCACGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.53, C:0.24, G:0.13, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:1487186 original size:15 final size:15
Alignment explanation
Indices: 1487163--1487200 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
1487153 AAAATCACTC
1487163 AAATATTTTTTAAAA
1 AAATATTTTTTAAAA
*
1487178 AATTA-TTTTTAAAA
1 AAATATTTTTTAAAA
1487192 AAATATTTT
1 AAATATTTT
1487201 AATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATATTTTTTAAAA
Found at i:1487209 original size:21 final size:21
Alignment explanation
Indices: 1487182--1487222 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1487172 TTAAAAAATT
*
1487182 ATTTTTAAAAAAAT-ATTTTA
1 ATTTTTTAAAAAATAATTTTA
1487202 ATTTTTTAAAAAATAATTTTA
1 ATTTTTTAAAAAATAATTTTA
1487223 TGAGTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTTTTAAAAAATAATTTTA
Found at i:1489033 original size:28 final size:27
Alignment explanation
Indices: 1489002--1489058 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
1488992 ATACTTTTAG
*
1489002 AAAAAA-CTCATAATTTTCGAAAGTCTTA
1 AAAAAACCTCA-AATTTT-GAAAATCTTA
1489030 AAAAAACCTCAAATTTTGAAAATCTTA
1 AAAAAACCTCAAATTTTGAAAATCTTA
1489057 AA
1 AA
1489059 TCTAATCCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 11 0.41
28 12 0.44
29 4 0.15
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAAAACCTCAAATTTTGAAAATCTTA
Found at i:1490590 original size:11 final size:12
Alignment explanation
Indices: 1490574--1490602 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1490564 AAGATAATAT
1490574 TCAAACTCG-AC
1 TCAAACTCGAAC
1490585 TCAAACTCGAAC
1 TCAAACTCGAAC
1490597 TCAAAC
1 TCAAAC
1490603 AAAAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.17
Consensus pattern (12 bp):
TCAAACTCGAAC
Found at i:1492736 original size:7 final size:7
Alignment explanation
Indices: 1492721--1492773 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
1492711 AATTGAATTA
*
1492721 AGGGATT
1 AGGGTTT
1492728 AGGGTTT
1 AGGGTTT
1492735 AGGGTTT
1 AGGGTTT
**
1492742 AATGTTT
1 AGGGTTT
*
1492749 ATGGTTT
1 AGGGTTT
1492756 AGGGGTTT
1 A-GGGTTT
*
1492764 AGTGTTT
1 AGGGTTT
1492771 AGG
1 AGG
1492774 ATTAAGGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (7 bp):
AGGGTTT
Found at i:1492761 original size:22 final size:21
Alignment explanation
Indices: 1492730--1492771 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1492720 AAGGGATTAG
1492730 GGTTTAGGGTTTAATGTTTAT
1 GGTTTAGGGTTTAATGTTTAT
*
1492751 GGTTTAGGGGTTTAGTGTTTA
1 GGTTTA-GGGTTTAATGTTTA
1492772 GGATTAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (21 bp):
GGTTTAGGGTTTAATGTTTAT
Found at i:1492811 original size:14 final size:14
Alignment explanation
Indices: 1492726--1492846 Score: 54
Period size: 14 Copynumber: 8.6 Consensus size: 14
1492716 AATTAAGGGA
*
1492726 TTAGGGTTTAGGGT
1 TTAGGGTTTAGGAT
**
1492740 TTAATGTTTATGG-T
1 TTAGGGTTTA-GGAT
1492754 TTAGGGGTTTAGTG-T
1 TTA-GGGTTTAG-GAT
* *
1492769 TTAGGATTAAGGA-
1 TTAGGGTTTAGGAT
* *
1492782 TTAGGGATT-GATAT
1 TTAGGGTTTAG-GAT
1492796 TTAGGGTTTAGGAT
1 TTAGGGTTTAGGAT
* *
1492810 TTATAGGTTAAGGA-
1 TTA-GGGTTTAGGAT
* * *
1492824 TTATGGTTAAGGGT
1 TTAGGGTTTAGGAT
1492838 TTAGGGTTT
1 TTAGGGTTT
1492847 TGGTTTTAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 18
0.69 0.16 0.16
Matches are distributed among these distances:
12 1 0.01
13 16 0.20
14 42 0.52
15 21 0.26
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TTAGGGTTTAGGAT
Found at i:1492833 original size:13 final size:15
Alignment explanation
Indices: 1492800--1492840 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
1492790 TGATATTTAG
*
1492800 GGTTTAGGATTTATA
1 GGTTAAGGATTTATA
1492815 GGTTAAGGA-TTAT-
1 GGTTAAGGATTTATA
*
1492828 GGTTAAGGGTTTA
1 GGTTAAGGATTTA
1492841 GGGTTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 8 0.35
14 7 0.30
15 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (15 bp):
GGTTAAGGATTTATA
Found at i:1493389 original size:11 final size:11
Alignment explanation
Indices: 1493373--1493435 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
1493363 GTATTATAGA
1493373 ATTTTTAATAT
1 ATTTTTAATAT
1493384 ATTTTTAA-A-
1 ATTTTTAATAT
1493393 ATTTTATAAT-T
1 ATTTT-TAATAT
*** *
1493404 ATCAATAGTAT
1 ATTTTTAATAT
*
1493415 ATTTTAAATAT
1 ATTTTTAATAT
1493426 ATTTTTAATA
1 ATTTTTAATA
1493436 ATGTAATTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 26 0.68
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:1494121 original size:12 final size:13
Alignment explanation
Indices: 1494104--1494167 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 13
1494094 ATATTTTTAG
1494104 TAAAATATTATA-
1 TAAAATATTATAT
1494116 TAAAATATTATTATT
1 TAAAATATTA-TA-T
** * *
1494131 TTTAATATTTTTAG
1 TAAAATA-TTATAT
1494145 TAAAATATTAT-T
1 TAAAATATTATAT
1494157 TAAAATATTAT
1 TAAAATATTAT
1494168 TATTTTTACT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
12 21 0.52
13 5 0.12
14 5 0.12
15 7 0.17
16 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
TAAAATATTATAT
Found at i:1494127 original size:29 final size:28
Alignment explanation
Indices: 1494095--1494157 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
1494085 TTATTTTTAA
1494095 TATTTTTAGTAAAATATTATA-TAAAATAT
1 TATTTTT-GTAAAAT-TTATAGTAAAATAT
* * *
1494124 TATTATTTTTAATATTTTTAGTAAAATAT
1 TATT-TTTGTAAAATTTATAGTAAAATAT
1494153 TATTT
1 TATTT
1494158 AAAATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 5 0.17
29 21 0.72
30 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (28 bp):
TATTTTTGTAAAATTTATAGTAAAATAT
Found at i:1494128 original size:41 final size:41
Alignment explanation
Indices: 1494081--1494175 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
1494071 TGTTATTGAA
1494081 ATTATTATTTTTAATATTTTTAGTAAAATATTATATAAAAT
1 ATTATTATTTTTAATATTTTTAGTAAAATATTATATAAAAT
*
1494122 ATTATTATTTTTAATATTTTTAGTAAAATATTATTTAAAAT
1 ATTATTATTTTTAATATTTTTAGTAAAATATTATATAAAAT
1494163 ATTATTATTTTTA
1 ATTATTATTTTTA
1494176 CTGAGAATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (41 bp):
ATTATTATTTTTAATATTTTTAGTAAAATATTATATAAAAT
Found at i:1494129 original size:15 final size:15
Alignment explanation
Indices: 1494109--1494170 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 15
1494099 TTTAGTAAAA
1494109 TATTATATAAAATAT
1 TATTATATAAAATAT
* **
1494124 TATTATTTTTAATAT
1 TATTATATAAAATAT
1494139 T-TT-TAGTAAAATAT
1 TATTATA-TAAAATAT
1494153 TA-T-T-TAAAATAT
1 TATTATATAAAATAT
1494165 TATTAT
1 TATTAT
1494171 TTTTACTGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
12 10 0.27
13 2 0.05
14 12 0.32
15 13 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATTATATAAAATAT
Found at i:1494240 original size:12 final size:12
Alignment explanation
Indices: 1494225--1494249 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1494215 ATATATTCGG
1494225 TAAAATATTATT
1 TAAAATATTATT
1494237 TAAAATATTATT
1 TAAAATATTATT
1494249 T
1 T
1494250 TTTTACCGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:1495264 original size:15 final size:16
Alignment explanation
Indices: 1495230--1495266 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1495220 TAAAAATTTA
1495230 TTTAAAATTAATAAAC
1 TTTAAAATTAATAAAC
*
1495246 -TTAAAATT-ATATAC
1 TTTAAAATTAATAAAC
1495260 TTTAAAA
1 TTTAAAA
1495267 AAAACTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAAATTAATAAAC
Found at i:1495608 original size:20 final size:20
Alignment explanation
Indices: 1495583--1495627 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1495573 TGGGATATGA
1495583 AGATTTAGAGTT-AGTGTTAG
1 AGATTTAGAGTTGA-TGTTAG
* *
1495603 AGATTTGGAGTTGATTTTAG
1 AGATTTAGAGTTGATGTTAG
1495623 AGATT
1 AGATT
1495628 CAAAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (20 bp):
AGATTTAGAGTTGATGTTAG
Found at i:1497511 original size:14 final size:14
Alignment explanation
Indices: 1497492--1497542 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
1497482 AGATTGTAAA
1497492 AATGAAAAAATAAT
1 AATGAAAAAATAAT
*
1497506 AATG-AAAAATATT
1 AATGAAAAAATAAT
* *
1497519 AAT-ATAATAATAGT
1 AATGA-AAAAATAAT
1497533 AATGAAAAAA
1 AATGAAAAAA
1497543 GATAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 11 0.37
14 18 0.60
15 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (14 bp):
AATGAAAAAATAAT
Found at i:1497648 original size:22 final size:21
Alignment explanation
Indices: 1497623--1497667 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1497613 AAAAAGGGTT
*
1497623 AAATATTGAGATAAAAAAATAA
1 AAATATTAAGA-AAAAAAATAA
* *
1497645 AAATGTTAAGAAAATAAATAA
1 AAATATTAAGAAAAAAAATAA
1497666 AA
1 AA
1497668 TACTAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (21 bp):
AAATATTAAGAAAAAAAATAA
Found at i:1497693 original size:18 final size:18
Alignment explanation
Indices: 1497655--1497693 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1497645 AAATGTTAAG
*
1497655 AAAATAAATAAAATACTA
1 AAAATAAATAAAAAACTA
1497673 AAAATAAATAAATAAAC-A
1 AAAATAAATAAA-AAACTA
1497691 AAA
1 AAA
1497694 GGATCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAATAAATAAAAAACTA
Found at i:1498367 original size:18 final size:18
Alignment explanation
Indices: 1498344--1498385 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1498334 TTCTGTTTTC
*
1498344 TCGATCATTGATGTGGTT
1 TCGATCATTGATGTGGGT
*
1498362 TCGATCGTTGATGTGGGT
1 TCGATCATTGATGTGGGT
1498380 TCGATC
1 TCGATC
1498386 TTGTGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.40
Consensus pattern (18 bp):
TCGATCATTGATGTGGGT
Found at i:1498807 original size:23 final size:23
Alignment explanation
Indices: 1498764--1498807 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1498754 AAAAACCAAA
* *
1498764 GAATAAAATAAATAAATAAAATC
1 GAATAAAATAAAAAAAAAAAATC
1498787 GAATAAAA-AAACAAAAAAAAA
1 GAATAAAATAAA-AAAAAAAAA
1498808 CAAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (23 bp):
GAATAAAATAAAAAAAAAAAATC
Found at i:1498946 original size:16 final size:16
Alignment explanation
Indices: 1498910--1498949 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
1498900 AATTGTATAT
1498910 TATATATTTTTAAAAA
1 TATATATTTTTAAAAA
*
1498926 AATAT-TTTTTAAAAA
1 TATATATTTTTAAAAA
1498941 CTATATATT
1 -TATATATT
1498950 ATATATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 10 0.50
16 8 0.40
17 2 0.10
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATATTTTTAAAAA
Found at i:1499216 original size:112 final size:111
Alignment explanation
Indices: 1498866--1499214 Score: 349
Period size: 112 Copynumber: 3.1 Consensus size: 111
1498856 ATTTTCAAAT
* * * *
1498866 TATATATTATAT-A-TATTTAAAGATATTTTTCAAAAATTGTATATTATATAT-TTTTAAAAAAA
1 TATATATTATATAAGTTTTTAAA-ATA-TTTTCAAAAACTATATATTATATATATTTT--CAAAA
* * * *
1498928 TATTTTTTAAAAACTATATATTATATATATGTTTTCAAAATGTTTTAAAAAC
62 T-GTTTTCAAAAACTATATA-TATATATATATTTTCAAAATGATTTAAAAAC
* * * * *
1498980 TATATATTATATAAGTTTTCAAAATGGTTTTTTAAAAACCATATATTATACA-AGTTTTCAAAAT
1 TATATATTATATAAGTTTTTAAAAT--ATTTTCAAAAACTATATATTATATATA-TTTTCAAAAT
* * *
1499044 G--TTC-AAAACTTATATATTATATATGTTTTTTCAAAATGATTTCAAAAC
63 GTTTTCAAAAAC-TATATA-TATATATATATTTTCAAAATGATTTAAAAAC
*
1499092 TATATATTATATAAGTTTTTAAAATATTTTCAAAAACTATATATTATATATATATTCAAAATGTT
1 TATATATTATATAAGTTTTTAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATGTT
*
1499157 TTCAAAAACTATATA-ATATATACATTTTCAAAAAT-AGTTT-AAAAC
66 TTCAAAAACTATATATATATATATATTTTC-AAAATGA-TTTAAAAAC
1499202 TATATATTATATA
1 TATATATTATATA
1499215 TATATTTCAA
Statistics
Matches: 198, Mismatches: 24, Indels: 30
0.79 0.10 0.12
Matches are distributed among these distances:
110 61 0.31
111 14 0.07
112 69 0.35
113 5 0.03
114 12 0.06
115 8 0.04
116 25 0.13
117 4 0.02
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (111 bp):
TATATATTATATAAGTTTTTAAAATATTTTCAAAAACTATATATTATATATATTTTCAAAATGTT
TTCAAAAACTATATATATATATATATTTTCAAAATGATTTAAAAAC
Found at i:1499223 original size:37 final size:36
Alignment explanation
Indices: 1498866--1499226 Score: 301
Period size: 37 Copynumber: 9.7 Consensus size: 36
1498856 ATTTTCAAAT
* *
1498866 TATATATTATATATA-TTT-AAAGATATTTTTCAAAAAT
1 TATATATTATATATATTTTCAAA-AT-GTTTT-AAAAAC
* * *
1498903 TGTATATTATATAT-TTTTAAAAAAATATTTTTTAAAAAC
1 TATATATTATATATATTTT---CAAA-ATGTTTTAAAAAC
1498942 TATATATTATATATATGTTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATA--TTTTCAAAATGTTTTAAAAAC
1498980 TATATATTATATA-AGTTTTCAAAATGGTTTTTTAAAAAC
1 TATATATTATATATA-TTTTCAAAAT-G--TTTTAAAAAC
* * *
1499019 CATATATTATACA-AGTTTTCAAAATG--TTCAAAAC
1 TATATATTATATATA-TTTTCAAAATGTTTTAAAAAC
* * *
1499053 TTATATATTATATATGTTTTTTCAAAATGATTTCAAAAC
1 -TATATATTATATA--TATTTTCAAAATGTTTTAAAAAC
* *
1499092 TATATATTATATA-AGTTTTTAAAATATTTTCAAAAAC
1 TATATATTATATATA-TTTTCAAAATGTTTT-AAAAAC
*
1499129 TATATATTATATATATATTCAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTT-AAAAAC
* *
1499166 TATATAATATATACATTTTCAAAAATAG-TTT-AAAAC
1 TATATATTATATATATTTTC-AAAAT-GTTTTAAAAAC
1499202 TATATATTATATATATATTTCAAAA
1 TATATATTATATATAT-TTTCAAAA
1499227 ATAATTTGTA
Statistics
Matches: 276, Mismatches: 25, Indels: 47
0.79 0.07 0.14
Matches are distributed among these distances:
34 7 0.03
35 11 0.04
36 46 0.17
37 87 0.32
38 48 0.17
39 63 0.23
40 5 0.02
41 5 0.02
42 4 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATATTATATATATTTTCAAAATGTTTTAAAAAC
Found at i:1499249 original size:36 final size:37
Alignment explanation
Indices: 1499048--1499255 Score: 146
Period size: 37 Copynumber: 5.6 Consensus size: 37
1499038 CAAAATGTTC
* * * *
1499048 AAAACTTATATATTATATATGTTTTTTC-AAAATGATTT
1 AAAAC-TATATAATATATAT-ATATTTCAAAAATAATTT
** *
1499086 CAAAACTATAT-AT-TATATA-AGTTTTTAAAATATTTT
1 -AAAACTATATAATATATATATA-TTTCAAAAATAATTT
* **
1499122 CAAAAACTATATATTATATATATA-TTC-AAAATGTTTT
1 --AAAACTATATAATATATATATATTTCAAAAATAATTT
* *
1499159 CAAAAACTATATAATATATACAT-TTTCAAAAATAGTTT
1 --AAAACTATATAATATATATATATTTCAAAAATAATTT
*
1499197 AAAACTATATATTATATATATATTTCAAAAATAATTT
1 AAAACTATATAATATATATATATTTCAAAAATAATTT
*
1499234 GTAAA-T-TATAATATATATATAT
1 -AAAACTATATAATATATATATAT
1499256 ATATACATAT
Statistics
Matches: 140, Mismatches: 19, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
35 3 0.02
36 47 0.34
37 59 0.42
38 19 0.14
39 11 0.08
40 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAACTATATAATATATATATATTTCAAAAATAATTT
Found at i:1499251 original size:2 final size:2
Alignment explanation
Indices: 1499240--1499280 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1499230 ATTTGTAAAT
*
1499240 TA TA -A TA TA TA TA TA TA TA TA CA 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
1499281 ATAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1500170 original size:85 final size:85
Alignment explanation
Indices: 1500052--1500684 Score: 728
Period size: 85 Copynumber: 7.4 Consensus size: 85
1500042 CTCCACAATT
* ** * * * * * * *
1500052 TTTGTTGACAAATAACTTTTCTTGACTTAAGCTATGCTGTAAATATGACATGCCCTCGAGCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
* * *
1500117 TGGAATCGAACTTGAAGGTA
66 TGTAATCGAACTCGAAGGTC
* * ** * *
1500137 TTTGTTGGCAGATAGCCCTTCTAACCTTGAGCTATGTTGTAAATATT-ATATTCCTTTGAGCTGA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAAT-TTGATATGCCTTTGAGCTGA
*
1500201 ATGTAATCGAATTCGAAGGTC
65 ATGTAATCGAACTCGAAGGTC
* * * * * * *
1500222 TTTATTGACAGATAACCCTCCTCACCTTGAGTTATGCTATAAATTTGACATGCCTTTAAGCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
*
1500287 TGTAATCGAACTCAAAGGTC
66 TGTAATCGAACTCGAAGGTC
* * * *
1500307 TTGGTTAACAAATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGACCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
1500372 TGTAATCGAACTCGAAGGTC
66 TGTAATCGAACTCGAAGGTC
* * * * *
1500392 TTTGCTGACAGATAACCATTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTAAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
1500457 TGTAATCGAACTCGAAGGTC
66 TGTAATCGAACTCGAAGGTC
* * * * *
1500477 TTTTGTTGACAGATAACCCTTTTCGCCTTGAGCTATACTATAAATTTGATGTGCCTTAGAGCTGA
1 -TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGA
1500542 ATGTAATCGAACTCGAAGGTC
65 ATGTAATCGAACTCGAAGGTC
* * * ** * * * *
1500563 TTTTGTTGATAGATAGCCCTTCTTGCCTTGAGCTATATTGTAAATTTGATGTACATTTGAGCTAA
1 -TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGA
* *
1500628 ATGCAATCGAACTCGAAGGTAT
65 ATGTAATCGAACTCGAAGGT-C
* *
1500650 TTTGTTGACAGATAGCCCTTCTCGCCCTGAGCTAT
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
1500685 ACTATAATAG
Statistics
Matches: 468, Mismatches: 76, Indels: 7
0.85 0.14 0.01
Matches are distributed among these distances:
84 2 0.00
85 282 0.60
86 184 0.39
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (85 bp):
TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAA
TGTAATCGAACTCGAAGGTC
Found at i:1512380 original size:55 final size:54
Alignment explanation
Indices: 1512306--1512682 Score: 276
Period size: 54 Copynumber: 7.0 Consensus size: 54
1512296 TTTGCACTCG
* * * * *
1512306 TAATGTCAATA-GAATAATTCACCACCTCATTAAGAATTATGTGGGGATGCACATC-
1 TAATGCCAATACGAA-AATTCACAAACTCATTAAGAATT-TCTGAGGATGCACA-CA
* * * * *
1512361 TACTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACA
1 TAATGCCAATACGAAAATTCACAAACTCATTAAGAATTTCTGAGGATGCACACA
* * * * *
1512415 TAATGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
1 TAATGCCAATACGAAAATTCACAAACTCATTAAGAATTTCTGAGGATGCACACA
* * * * * * * *
1512469 CAGTGTCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
1 TAATGCCAATACGAAAATTCACAAACTCATTAAGAATTTCTGAGGATGCACACA
* * * * * * * *
1512523 CAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
1 TAATGCCAATACGAAAATTCACAAACTCATTAAGAATTTCTGAGGATGCACACA
* * * * * * *
1512577 CAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACA
1 TAATGCCAATACGAAAATTCACAAACTCATTAAGAATTTCTGAGGATGCACACA
* * * * * * *
1512631 CAGTGCTAATACTG-AAATTCATAAACAT-ATTATGAATTTCTTAGGTTGCACA
1 TAATGCCAATAC-GAAAATTCACAAAC-TCATTAAGAATTTCTGAGGATGCACA
1512683 AATAGTTCCC
Statistics
Matches: 299, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
53 1 0.00
54 265 0.89
55 30 0.10
56 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (54 bp):
TAATGCCAATACGAAAATTCACAAACTCATTAAGAATTTCTGAGGATGCACACA
Found at i:1512429 original size:54 final size:54
Alignment explanation
Indices: 1512364--1512682 Score: 559
Period size: 54 Copynumber: 5.9 Consensus size: 54
1512354 GCACATCTAC
* * *
1512364 TGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAA
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
1512418 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
*
1512472 TGTCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
*
1512526 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
1512580 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
* *
1512634 TGCTAATACTG-AAATTCATAAACATATTATGAATTTCTTAGGTTGCACA
1 TGCCAATAC-GAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACA
1512683 AATAGTTCCC
Statistics
Matches: 255, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
54 254 1.00
55 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (54 bp):
TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACAG
Found at i:1513178 original size:94 final size:95
Alignment explanation
Indices: 1513034--1513233 Score: 280
Period size: 94 Copynumber: 2.1 Consensus size: 95
1513024 CCCTACCATG
*
1513034 GTATCGATACATCTATACTATGGTACCGATACTCCCTTTCAGTACCGATACCATTTCTACATTCT
1 GTATCGATACTTCTATACTATGGTACCGATACTCCCTTTCAGTACCGATACCATTTCTACATTCT
*
1513099 AGA-TCCATGGTATCGATA-CTTCTCTCATA
66 AGATTCCAAGGTATCGATACCTT-TCTCATA
* * **
1513128 GTA-CTGATACTTCTATATTATGGTACTGATACTCCCTTTCAGTATTGATACCATTTCTACATTC
1 GTATC-GATACTTCTATACTATGGTACCGATACTCCCTTTCAGTACCGATACCATTTCTACATTC
* * *
1513192 TGGATTCCAAGGTATCTATACCTTTCTCTTA
65 TAGATTCCAAGGTATCGATACCTTTCTCATA
1513223 GTATCGATACT
1 GTATCGATACT
1513234 CACTTCAATA
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
93 1 0.01
94 60 0.65
95 28 0.30
96 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.39
Consensus pattern (95 bp):
GTATCGATACTTCTATACTATGGTACCGATACTCCCTTTCAGTACCGATACCATTTCTACATTCT
AGATTCCAAGGTATCGATACCTTTCTCATA
Found at i:1521776 original size:22 final size:22
Alignment explanation
Indices: 1521751--1521794 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1521741 TTAATTCGTA
1521751 TTGGTTTGCATATACGGGTTAT
1 TTGGTTTGCATATACGGGTTAT
1521773 TTGGTTTGCATATACGGGTTAT
1 TTGGTTTGCATATACGGGTTAT
1521795 GGGTGTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.27, T:0.45
Consensus pattern (22 bp):
TTGGTTTGCATATACGGGTTAT
Found at i:1521806 original size:22 final size:22
Alignment explanation
Indices: 1521749--1521806 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
1521739 TTTTAATTCG
*
1521749 TATT-GGTTTGCATATACGGGT
1 TATTGGGTTTACATATACGGGT
* *
1521770 TATTTGGTTTGCATATACGGGT
1 TATTGGGTTTACATATACGGGT
1521792 TA-TGGGTGTTACATA
1 TATTGGGT-TTACATA
1521807 AATTTTAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.43
Consensus pattern (22 bp):
TATTGGGTTTACATATACGGGT
Found at i:1528621 original size:3 final size:3
Alignment explanation
Indices: 1528615--1528697 Score: 112
Period size: 3 Copynumber: 27.7 Consensus size: 3
1528605 TTTTTATCCA
* ** *
1528615 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
1528663 TAT CAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1528698 ATTTATATTA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1528632 original size:15 final size:15
Alignment explanation
Indices: 1528614--1528707 Score: 95
Period size: 15 Copynumber: 6.4 Consensus size: 15
1528604 TTTTTTATCC
1528614 ATATTATTATTATTA
1 ATATTATTATTATTA
1528629 ATATTATTATTA-T-
1 ATATTATTATTATTA
**
1528642 -CCTTATTATTATTA
1 ATATTATTATTATTA
*
1528656 ATATTATTATCATTA
1 ATATTATTATTATTA
* *
1528671 TTATTATTATAATTA
1 ATATTATTATTATTA
* *
1528686 TTATTATTATTAATTT
1 ATATTATTATT-ATTA
1528702 ATATTA
1 ATATTA
1528708 AATATATTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
12 9 0.14
13 1 0.02
14 1 0.02
15 46 0.71
16 8 0.12
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATTATTATTATTA
Found at i:1530342 original size:17 final size:18
Alignment explanation
Indices: 1530317--1530369 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
1530307 GGATATTTTT
1530317 AAATAAATATAATTTTGA
1 AAATAAATATAATTTTGA
* *
1530335 AAAT-AATAGAATTAT-A
1 AAATAAATATAATTTTGA
* *
1530351 AATTAAATATATTTTTGA
1 AAATAAATATAATTTTGA
1530369 A
1 A
1530370 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAAATATAATTTTGA
Found at i:1530870 original size:18 final size:18
Alignment explanation
Indices: 1530829--1530863 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1530819 CTTTTTATAT
1530829 ATATTTATTATTTTCATA
1 ATATTTATTATTTTCATA
1530847 ATATTTA-TATGTTTCAT
1 ATATTTATTAT-TTTCAT
1530864 TTTATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
ATATTTATTATTTTCATA
Found at i:1542744 original size:52 final size:52
Alignment explanation
Indices: 1542666--1542806 Score: 273
Period size: 52 Copynumber: 2.7 Consensus size: 52
1542656 GAATATGCCA
1542666 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
1542718 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1542770 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1542807 TGAACAGAAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 88 1.00
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:1542926 original size:52 final size:52
Alignment explanation
Indices: 1542848--1542988 Score: 282
Period size: 52 Copynumber: 2.7 Consensus size: 52
1542838 GAATTTGCCA
1542848 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1542900 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1542952 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1542989 TGGACAGAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:1542968 original size:182 final size:182
Alignment explanation
Indices: 1542654--1543249 Score: 1156
Period size: 182 Copynumber: 3.3 Consensus size: 182
1542644 ACTGGAACAA
*
1542654 ATGAATATGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
*
1542719 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGATAGAACATAGCATCTTCTGG
66 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGG
*
1542784 AAGTGTTCTTTGAGTTATCTGATTGAACAGAATCAAGCATTGAATTTAGAAG
131 AAGTGTTCTTTGAGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAG
1542836 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1542901 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGG
66 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGG
1542966 AAGTGTTCTTTGAGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAG
131 AAGTGTTCTTTGAGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAG
1543018 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1543083 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGG
66 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGG
1543148 AAGTGTTCTTTGAGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAG
131 AAGTGTTCTTTGAGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAG
*
1543200 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1543250 CGAAGAAGTG
Statistics
Matches: 410, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 410 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (182 bp):
ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAG
Found at i:1543005 original size:47 final size:48
Alignment explanation
Indices: 1542848--1543005 Score: 221
Period size: 52 Copynumber: 3.1 Consensus size: 48
1542838 GAATTTGCCA
1542848 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA----GTTGGACAGAAC
1542900 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA----GTTGGACAGAAC
1542952 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA-TTGGACAGAATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAGTTGGACAGAA-C
1543000 A-AGCAT
1 ATAGCAT
1543006 TGAATTTAGA
Statistics
Matches: 105, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
47 15 0.14
48 2 0.02
52 88 0.84
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (48 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAGTTGGACAGAAC
Found at i:1543108 original size:52 final size:52
Alignment explanation
Indices: 1543030--1543170 Score: 282
Period size: 52 Copynumber: 2.7 Consensus size: 52
1543020 GAATTTGCCA
1543030 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1543082 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1543134 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1543171 TGGACAGAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:1543187 original size:47 final size:48
Alignment explanation
Indices: 1543030--1543187 Score: 221
Period size: 52 Copynumber: 3.1 Consensus size: 48
1543020 GAATTTGCCA
1543030 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA----GTTGGACAGAAC
1543082 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA----GTTGGACAGAAC
1543134 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA-TTGGACAGAATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAGTTGGACAGAA-C
1543182 A-AGCAT
1 ATAGCAT
1543188 TGAATTTAGA
Statistics
Matches: 105, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
47 15 0.14
48 2 0.02
52 88 0.84
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (48 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAGTTGGACAGAAC
Found at i:1544008 original size:24 final size:23
Alignment explanation
Indices: 1543965--1544009 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
1543955 GTTCATAATG
*
1543965 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
1543988 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
1544010 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:1544017 original size:113 final size:113
Alignment explanation
Indices: 1543816--1544463 Score: 975
Period size: 113 Copynumber: 5.7 Consensus size: 113
1543806 TCAAATCCAC
* * * *
1543816 TTGATGGATCATTCATTACCAGAT-AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAG
1 TTGATGGATCA-ACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * * *
1543880 AAGTTCATAATGAGAAGAACTTGTTCAA-CTTGTTGTTTAAATTCATCAT
65 AAATTCATAATGAGAAGAATTTGTTCAACCTT-TTGCTTGAATTCATCAT
* *
1543929 TTGATGGATCAACATTTCCAGAG-AAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAACATTTCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * *
1543993 AAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTAAATTCATCAT
65 AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
* *
1544042 TTGATGGATCAACATTTCCAGAG-AAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAACATTTCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * *
1544106 AAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAT
65 AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
* * *
1544155 TTGGTGAATCATC-TTTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAACATTT-CCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
1544219 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
65 AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
*
1544268 TTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
1544333 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
66 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
*
1544381 TTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGA
1 TTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1544445 AAGTTCATAATGAGAAGAA
66 AA-TTCATAATGAGAAGAA
1544464 CTCATCAAGA
Statistics
Matches: 501, Mismatches: 27, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
112 16 0.03
113 480 0.96
114 5 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
TTGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
Found at i:1544121 original size:24 final size:23
Alignment explanation
Indices: 1544078--1544122 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
1544068 GTTCATAATG
*
1544078 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
1544101 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
1544123 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:1544724 original size:3 final size:3
Alignment explanation
Indices: 1544718--1544800 Score: 121
Period size: 3 Copynumber: 27.7 Consensus size: 3
1544708 TTTTTATCCA
* ** *
1544718 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1544766 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1544801 ATTTATATTA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1545324 original size:21 final size:22
Alignment explanation
Indices: 1545280--1545325 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1545270 AAAAAAAAAA
* *
1545280 AAAGGAGAGGACAGAGAGACAG
1 AAAGGAGAGGACAGAAACACAG
*
1545302 AAAGGAG-GGACAGAAACAGAG
1 AAAGGAGAGGACAGAAACACAG
1545323 AAA
1 AAA
1545326 AAAAAAACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.54, C:0.09, G:0.37, T:0.00
Consensus pattern (22 bp):
AAAGGAGAGGACAGAAACACAG
Found at i:1546447 original size:17 final size:18
Alignment explanation
Indices: 1546422--1546474 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
1546412 GGATATTTTT
1546422 AAATAAATATAATTTTGA
1 AAATAAATATAATTTTGA
* *
1546440 AAAT-AATAGAATTAT-A
1 AAATAAATATAATTTTGA
* *
1546456 AATTAAATATATTTTTGA
1 AAATAAATATAATTTTGA
1546474 A
1 A
1546475 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAAATATAATTTTGA
Found at i:1550920 original size:43 final size:42
Alignment explanation
Indices: 1550843--1550944 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
1550833 TTGTTGTTAT
*
1550843 CAAACGCCGCAATAGGTAATGATATATAGTGACGTTTTTTCAA
1 CAAACGCCGCAATAGGTAATGATATATAGCGACG-TTTTTCAA
* * *
1550886 CAAACGCCGCAATATGTGT-TTG-TATTTAGCGACGTTTTTCCA
1 CAAACGCCGCAATA-G-GTAATGATATATAGCGACGTTTTTCAA
* *
1550928 CAAACGACGTAATAGGT
1 CAAACGCCGCAATAGGT
1550945 TGTGAGATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
40 2 0.04
41 1 0.02
42 19 0.37
43 24 0.47
44 3 0.06
45 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (42 bp):
CAAACGCCGCAATAGGTAATGATATATAGCGACGTTTTTCAA
Found at i:1550986 original size:85 final size:85
Alignment explanation
Indices: 1550877--1551190 Score: 339
Period size: 86 Copynumber: 3.7 Consensus size: 85
1550867 TATAGTGACG
* * * * *
1550877 TTTTT-TCAACAAACGCCGCAATATGTGTTTG-TATTTAGCGACGTTTTTCCACAAACGACGTAA
1 TTTTTCTC-ACAAACACCGCAATAGGTG-TTGACATTTAGCGGCGTTTTTCCACAAACGACGCAA
* * *
1550940 TAGGTTGTGAGATTTAACAGCG
64 TAGGTTGTGACATTTAACGGCA
* * * * *
1550962 TTTTTCTCACAAACATCGCAATATGT-TTGACATTTAGCGGCGCTTTTCTTAAAAAC-ACTGCAA
1 TTTTTCTCACAAACACCGCAATAGGTGTTGACATTTAGCGGCGTTTTTC-CACAAACGAC-GCAA
* *
1551025 TAGATTATGACATTTAACGGCA
64 TAGGTTGTGACATTTAACGGCA
* * * * * *
1551047 TTTTTCTCACAAACGCTGCAATAGGTGTTGACATTTAGCGGTGTTTATCCTACAAATGTCGCAAT
1 TTTTTCTCACAAACACCGCAATAGGTGTTGACATTTAGCGGCGTTTTTCC-ACAAACGACGCAAT
1551112 AGGTTGTGACATTTAACGGCA
65 AGGTTGTGACATTTAACGGCA
* *
1551133 TTTTACTCACAAACACCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAACG
1 TTTTTCTCACAAACACCGCAATAGGTGTTGACATTTAGCGGCGTTTTT-CCACAAACG
1551191 CCGTAAAATG
Statistics
Matches: 188, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
83 3 0.02
84 17 0.09
85 68 0.36
86 97 0.52
87 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (85 bp):
TTTTTCTCACAAACACCGCAATAGGTGTTGACATTTAGCGGCGTTTTTCCACAAACGACGCAATA
GGTTGTGACATTTAACGGCA
Found at i:1551052 original size:43 final size:42
Alignment explanation
Indices: 1550875--1551189 Score: 230
Period size: 43 Copynumber: 7.4 Consensus size: 42
1550865 TATATAGTGA
* * * * *
1550875 CGTTTTT-TCAACAAACGCCGCAATATGTGTTTG-TATTTAGCGA
1 CGTTTTTCTC-ACAAACACTGCAATA-G-GTTTGACATTTAACGG
* * *
1550918 CGTTTTTC-CACAAACGAC-GTAATAGGTTGTGAGATTTAACAG
1 CGTTTTTCTCACAAAC-ACTGCAATAGGTT-TGACATTTAACGG
* *
1550960 CGTTTTTCTCACAAACA-TCGCAATATGTTTGACATTTAGCGG
1 CGTTTTTCTCACAAACACT-GCAATAGGTTTGACATTTAACGG
* * * *
1551002 CGCTTTTCTTAAAAACACTGCAATAGATTATGACATTTAACGG
1 CGTTTTTCTCACAAACACTGCAATAGGTT-TGACATTTAACGG
* * *
1551045 CATTTTTCTCACAAACGCTGCAATAGGTGTTGACATTTAGCGG
1 CGTTTTTCTCACAAACACTGCAATAGGT-TTGACATTTAACGG
* * **
1551088 TGTTTATC-CTACAAA-TGTCGCAATAGGTTGTGACATTTAACGG
1 CGTTTTTCTC-ACAAACACT-GCAATAGGTT-TGACATTTAACGG
* * * * *
1551131 CATTTTACTCACAAACACCGCAATAGGTGTTGAGATTTAGCGG
1 CGTTTTTCTCACAAACACTGCAATAGGT-TTGACATTTAACGG
*
1551174 CGTTTTTCCCACAAAC
1 CGTTTTTCTCACAAAC
1551190 GCCGTAAAAT
Statistics
Matches: 214, Mismatches: 42, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
40 3 0.01
41 3 0.01
42 61 0.29
43 144 0.67
44 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (42 bp):
CGTTTTTCTCACAAACACTGCAATAGGTTTGACATTTAACGG
Found at i:1551719 original size:21 final size:21
Alignment explanation
Indices: 1551687--1551762 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
1551677 GCTGATATGT
**
1551687 TGCTTCTCTCTATGCTGTCGT
1 TGCTTCTCTCTATGCTGTCAA
*
1551708 TGCTTCTCTCTATGCTTTCAA
1 TGCTTCTCTCTATGCTGTCAA
* *
1551729 TGCTTCTCTCTGTGCTGCCAA
1 TGCTTCTCTCTATGCTGTCAA
1551750 TGCTTCTCTCTAT
1 TGCTTCTCTCTAT
1551763 TTCCGTTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.09, C:0.30, G:0.14, T:0.46
Consensus pattern (21 bp):
TGCTTCTCTCTATGCTGTCAA
Found at i:1559357 original size:18 final size:18
Alignment explanation
Indices: 1559334--1559370 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1559324 TTTAACAGCC
*
1559334 TGTTATGTGAAATCAGAT
1 TGTTATCTGAAATCAGAT
1559352 TGTTATCTGAAATCAGAT
1 TGTTATCTGAAATCAGAT
1559370 T
1 T
1559371 AACGACGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (18 bp):
TGTTATCTGAAATCAGAT
Found at i:1567917 original size:82 final size:80
Alignment explanation
Indices: 1567801--1568136 Score: 282
Period size: 82 Copynumber: 4.1 Consensus size: 80
1567791 ATACAAATGT
* * *
1567801 CGCTAAAGTACTCCTCTGCTGCAGCATTTGTTGAAAAACACCACTATAAATCAACCTTATTGCGA
1 CGCTAAAGTACTACTCTGCTGCGGCATTTGTTGAAAAACACCACTATAAATAAACCTTATTGCG-
*
1567866 CGTATATATAAAAACTC
65 C-TATGTATAAAAACTC
* * * * ** * *
1567883 CGCTACAGTACTACTCTGTTGCGGCGTTTGTTGAACAACGTCACTATAGATGAACCTTATTGCGT
1 CGCTAAAGTACTACTCTGCTGCGGCATTTGTTGAAAAACACCACTATAAATAAACCTTATTGCG-
* *
1567948 CATTTGTATAAAAACGC
65 C-TATGTATAAAAACTC
* ** * * * ** * *
1567965 CGCTAAAGTACTTCTCTATTACGTCATTTATTGAAAAATGCCACTATAAATTAACCCTATTGTCG
1 CGCTAAAGTACTACTCTGCTGCGGCATTTGTTGAAAAACACCACTATAAATAAACCTTATTG-CG
* *
1568030 C-ATGTGTAAAAACTT
65 CTATGTATAAAAACTC
* * *
1568045 CGCTAAAGTACTACTCTGCTGCGACATTTGTTGAAAAA-ACGTCACTATATATAAATCTTATTGC
1 CGCTAAAGTACTACTCTGCTGCGGCATTTGTTGAAAAACAC--CACTATAAATAAACCTTATTGC
* *
1568109 GGCATTTGTATAGAAA-TGC
64 -GC-TATGTATAAAAACT-C
1568128 CGCTAAAGT
1 CGCTAAAGT
1568137 TATCATTTTG
Statistics
Matches: 200, Mismatches: 47, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
79 1 0.00
80 43 0.22
81 19 0.09
82 118 0.59
83 19 0.09
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (80 bp):
CGCTAAAGTACTACTCTGCTGCGGCATTTGTTGAAAAACACCACTATAAATAAACCTTATTGCGC
TATGTATAAAAACTC
Found at i:1568120 original size:163 final size:163
Alignment explanation
Indices: 1567825--1568136 Score: 412
Period size: 163 Copynumber: 1.9 Consensus size: 163
1567815 TCTGCTGCAG
* * *
1567825 CATTTGTTGAAAAACACCACTATAAATCAACCTTATTGCGACGTATATATAAAAACTCCGCTACA
1 CATTTATTGAAAAACACCACTATAAATCAACCCTATTGCGACG-ATATATAAAAACTCCGCTAAA
* * * * * *
1567890 GTACTACTCTGTTGCGGCGTTTGTTGAACAACGTCACTATAGATGAACCTTATTGCGTCATTTGT
65 GTACTACTCTGCTGCGACATTTGTTGAAAAACGTCACTATAGATAAACCTTATTGCGGCATTTGT
1567955 ATAAAAACGCCGCTAAAGTACTTCTCTATTACGT
130 ATAAAAACGCCGCTAAAGTACTTCTCTATTACGT
** * * * *
1567989 CATTTATTGAAAAATGCCACTATAAATTAACCCTATTGTCG-C-ATGTGTAAAAACTTCGCTAAA
1 CATTTATTGAAAAACACCACTATAAATCAACCCTATTG-CGACGATATATAAAAACTCCGCTAAA
* *
1568052 GTACTACTCTGCTGCGACATTTGTTGAAAAAACGTCACTATATATAAATCTTATTGCGGCATTTG
65 GTACTACTCTGCTGCGACATTTGTTG-AAAAACGTCACTATAGATAAACCTTATTGCGGCATTTG
* *
1568117 TATAGAAATGCCGCTAAAGT
129 TATAAAAACGCCGCTAAAGT
1568137 TATCATTTTG
Statistics
Matches: 127, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
162 40 0.31
163 51 0.40
164 34 0.27
165 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (163 bp):
CATTTATTGAAAAACACCACTATAAATCAACCCTATTGCGACGATATATAAAAACTCCGCTAAAG
TACTACTCTGCTGCGACATTTGTTGAAAAACGTCACTATAGATAAACCTTATTGCGGCATTTGTA
TAAAAACGCCGCTAAAGTACTTCTCTATTACGT
Found at i:1569667 original size:15 final size:14
Alignment explanation
Indices: 1569649--1569678 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1569639 TTTAAACTAT
1569649 AATAAAAATATAAAA
1 AATAAAAATA-AAAA
1569664 AATAAAAATAAAAA
1 AATAAAAATAAAAA
1569678 A
1 A
1569679 TGAAATTATA
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AATAAAAATAAAAA
Found at i:1569676 original size:13 final size:14
Alignment explanation
Indices: 1569653--1569694 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
1569643 AACTATAATA
1569653 AAAATATAAAAAAT
1 AAAATATAAAAAAT
1569667 AAAA-ATAAAAAAT
1 AAAATATAAAAAAT
*
1569680 GAAATTATAATAAAA
1 -AAAATATAA-AAAA
1569695 ATATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.38
14 7 0.29
15 4 0.17
16 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAATATAAAAAAT
Found at i:1570801 original size:2 final size:2
Alignment explanation
Indices: 1570794--1570825 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1570784 TGTAGAACCC
1570794 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
1570826 CTTTTGTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1570846 original size:17 final size:17
Alignment explanation
Indices: 1570824--1570857 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1570814 ATATATATAT
1570824 ATCTTTTGTGGAATCCC
1 ATCTTTTGTGGAATCCC
1570841 ATCTTTTGTGGAATCCC
1 ATCTTTTGTGGAATCCC
1570858 GAACAGCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (17 bp):
ATCTTTTGTGGAATCCC
Found at i:1585916 original size:47 final size:47
Alignment explanation
Indices: 1585852--1586083 Score: 284
Period size: 47 Copynumber: 5.1 Consensus size: 47
1585842 CCATTTATGT
1585852 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCA
1 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCA
*** * *
1585899 TTTTCGTTTATGACAT-C---C-T---TTAATGCATCCTTTCATGCA
1 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCA
* *
1585938 TTTTAAATTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGCA
1 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCA
** * *
1585985 TTTTAGTTTATGACATCCTTTCATGCCTTAATGTATTC-TTTCATGCA
1 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCA-TCATTTCATGCA
*
1586032 TTTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCA
1 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCA
1586079 TTTTA
1 TTTTA
1586084 GTTATGGATT
Statistics
Matches: 154, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
39 31 0.20
42 1 0.01
43 2 0.01
44 1 0.01
46 3 0.02
47 114 0.74
48 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (47 bp):
TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCA
Found at i:1585933 original size:39 final size:39
Alignment explanation
Indices: 1585879--1586010 Score: 138
Period size: 39 Copynumber: 3.2 Consensus size: 39
1585869 CTTTCATGCC
* *
1585879 TTAATGCATCATTTCATGCATTTTCGTTTATGACATCCT
1 TTAATGCATCCTTTCATGCATTTTAGTTTATGACATCCT
** *
1585918 TTAATGCATCCTTTCATGCATTTTAAATTATGGCATCATTTCATGCC
1 TTAATGCATCCTTTCATGCATTTTAGTTTAT-G-A-CA--TC---CT
1585965 TTAATGCATCCTTTCATGCATTTTAGTTTATGACATCCT
1 TTAATGCATCCTTTCATGCATTTTAGTTTATGACATCCT
*
1586004 TTCATGC
1 TTAATGC
1586011 CTTAATGTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
39 34 0.45
40 1 0.01
41 1 0.01
42 4 0.05
44 4 0.05
45 1 0.01
46 1 0.01
47 30 0.39
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (39 bp):
TTAATGCATCCTTTCATGCATTTTAGTTTATGACATCCT
Found at i:1585949 original size:86 final size:90
Alignment explanation
Indices: 1585852--1586086 Score: 352
Period size: 94 Copynumber: 2.6 Consensus size: 90
1585842 CCATTTATGT
*
1585852 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTCGTTTATGACAT-C
1 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTTATGACATCC
1585916 -C-T-TTAATGCATCCTTTCATGCA
66 TCATCTTAATGCATCCTTTCATGCA
* *
1585938 TTTTAAATTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTTATGACATCC
1 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTTATGACATCC
* *
1586003 TTTCATGCCTTAATGTATTCTTTCATGCA
66 --TCAT--CTTAATGCATCCTTTCATGCA
*
1586032 TTTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTT
1 TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTT
1586087 ATGGATTCGA
Statistics
Matches: 133, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
86 60 0.45
87 1 0.01
90 1 0.01
91 1 0.01
94 70 0.53
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (90 bp):
TTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTTATGACATCC
TCATCTTAATGCATCCTTTCATGCA
Found at i:1585953 original size:27 final size:26
Alignment explanation
Indices: 1585923--1586057 Score: 98
Period size: 27 Copynumber: 5.5 Consensus size: 26
1585913 ATCCTTTAAT
1585923 GCATCCTTTCATGCATTTTAAATTATG
1 GCATCCTTTCATGCATTTT-AATTATG
* *
1585950 GCATCATTTCATGC--CTT-A--AT-
1 GCATCCTTTCATGCATTTTAATTATG
*
1585970 GCATCCTTTCATGCATTTTAGTTTATG
1 GCATCCTTTCATGCATTTTA-ATTATG
* *
1585997 ACATCCTTTCATGC--CTTAATGTAT-
1 GCATCCTTTCATGCATTTTAAT-TATG
1586021 ---T-CTTTCATGCATTTTTAATTATG
1 GCATCCTTTCATGCA-TTTTAATTATG
1586044 GCATCCTTTCATGC
1 GCATCCTTTCATGC
1586058 CTTAATGCAT
Statistics
Matches: 83, Mismatches: 9, Indels: 32
0.67 0.07 0.26
Matches are distributed among these distances:
20 22 0.27
21 3 0.04
22 5 0.06
23 6 0.07
24 1 0.01
25 8 0.10
26 3 0.04
27 35 0.42
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.45
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTAATTATG
Found at i:1585979 original size:20 final size:20
Alignment explanation
Indices: 1585950--1586077 Score: 76
Period size: 20 Copynumber: 5.7 Consensus size: 20
1585940 TTAAATTATG
*
1585950 GCATCATTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
1585970 GCATCCTTTCATGCATTTTAGTTTAT
1 GCATCCTTTCATGC--CTTA----AT
1585996 GACATCCTTTCATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
* * *
1586017 GTATTCTTTCATGCATTTTTAATTAT
1 GCATCCTTTCATGC---CTT-A--AT
1586043 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
1586064 GCATCATTTCATGC
1 GCATCCTTTCATGC
1586078 ATTTTAGTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
20 37 0.44
21 5 0.06
22 3 0.04
23 3 0.04
24 3 0.04
25 3 0.04
26 5 0.06
27 25 0.30
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.45
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1586524 original size:22 final size:20
Alignment explanation
Indices: 1586482--1586535 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 20
1586472 TGGCTCCTCA
1586482 GTATCGATACCCATACCATG
1 GTATCGATACCCATACCATG
*
1586502 GTATCGATACTACCATACTATG
1 GTATCGATAC--CCATACCATG
*
1586524 GAATCGATACCC
1 GTATCGATACCC
1586536 TATTATGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (20 bp):
GTATCGATACCCATACCATG
Found at i:1589138 original size:103 final size:102
Alignment explanation
Indices: 1588957--1589156 Score: 328
Period size: 103 Copynumber: 2.0 Consensus size: 102
1588947 TTCTTCTCTT
* * *
1588957 TCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTTCTTCT
1 TCTTCAGATAAGTTCTTCTCATTATGAACACTTCTGGAAAAGTTGATGCTGATCTATCTCCTTCT
*
1589022 GTGATAGAGTCATGCAAAAGGTTGAATAAGTTCTTCC
66 GTGATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCC
**
1589059 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTC
1 TCTTCAGATAAGTTCTTCTCATTATGAACACT-TCTGGAAAAGTTGATGCTGATCTATCTCCTTC
*
1589124 TGTGATAGATTCATGCAAAAGGTTGAACAAGTT
65 TGTGATAGAGTCATGCAAAAGGTTGAACAAGTT
1589157 ATTCTCATTA
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 29 0.32
103 61 0.68
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (102 bp):
TCTTCAGATAAGTTCTTCTCATTATGAACACTTCTGGAAAAGTTGATGCTGATCTATCTCCTTCT
GTGATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCC
Found at i:1589484 original size:113 final size:113
Alignment explanation
Indices: 1589138--1589661 Score: 756
Period size: 113 Copynumber: 4.7 Consensus size: 113
1589128 ATAGATTCAT
* * *
1589138 GCAAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTC-TCCCTCTTCAGATAAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** * * *
1589202 ATTATGAACTTTTTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGA
66 ATTATGAACTCTACCTGGAAATGCTGATCCATCAAGTGATGAATTCGA
* *
1589250 GCAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
1589314 ATTATGAACTCTTA-C-AGAAATGTTGATCCATCGAA-TGATGAATTCGA
66 ATTATGAACTC-TACCTGGAAATGCTGATCCATC-AAGTGATGAATTCGA
* *
1589361 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTATTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
1589426 ATTATGAACACTACCTGGCAATGCTGATCCATCAAGTAATGAATTCGA
66 ATTATGAACTCTACCTGGAAATGCTGATCCATCAAGTGATGAATTCGA
* *
1589474 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTATTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
1589539 ATTATGAACTCTACCTGGCAATGCTGATCCATCAAGTGATGAATTTGA
66 ATTATGAACTCTACCTGGAAATGCTGATCCATCAAGTGATGAATTCGA
* *
1589587 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATT-TTCC-TCTTCAGATGAGTTCTTCCC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
1589650 ATTATAAACTCT
66 ATTATGAACTCT
1589662 TTCAAAAATG
Statistics
Matches: 377, Mismatches: 29, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
111 95 0.25
112 110 0.29
113 172 0.46
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTACCTGGAAATGCTGATCCATCAAGTGATGAATTCGA
Found at i:1589636 original size:224 final size:223
Alignment explanation
Indices: 1589138--1589654 Score: 752
Period size: 224 Copynumber: 2.3 Consensus size: 223
1589128 ATAGATTCAT
* * *
1589138 GCAAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCTTCAGATAAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
** ** * * *
1589203 TTATGAACTTTTTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCAAAAAGTTAAACAAGT
66 TTATGAACACTACCTGGAAAAGCTGATCCATCAAGTAATGAATTCGAGCAAAAAGTTAAACAAGT
*
1589268 TCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTACAGAA
131 TCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCTTACAGAA
*
1589333 ATGTTGATCCATCGAATGATGAATTCGA
196 ATGCTGATCCATCGAATGATGAATTCGA
* *
1589361 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTATTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATGAGTTCTTCTC
* * * *
1589426 ATTATGAACACTACCTGGCAATGCTGATCCATCAAGTAATGAATTCGAGCAAAAGGTTGAACAAG
65 ATTATGAACACTACCTGGAAAAGCTGATCCATCAAGTAATGAATTCGAGCAAAAAGTTAAACAAG
*
1589491 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTATTCTCATTATGAACTC-TACCT
130 TTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTATTCTCATTATGAACTCTTA-C-
* * *
1589555 GGCAATGCTGATCCATC-AAGTGATGAATTTGA
192 AGAAATGCTGATCCATCGAA-TGATGAATTCGA
* *
1589587 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATT-TTCCTCTTCAGATGAGTTCTTCCCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1589651 TTAT
66 TTAT
1589655 AAACTCTTTC
Statistics
Matches: 263, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
223 41 0.16
224 120 0.46
225 39 0.15
226 63 0.24
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (223 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
TTATGAACACTACCTGGAAAAGCTGATCCATCAAGTAATGAATTCGAGCAAAAAGTTAAACAAGT
TCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCTTACAGAA
ATGCTGATCCATCGAATGATGAATTCGA
Found at i:1590082 original size:22 final size:22
Alignment explanation
Indices: 1590057--1590132 Score: 116
Period size: 22 Copynumber: 3.5 Consensus size: 22
1590047 AAAGTTTTCT
*
1590057 TCTTTGAAAAGAGAATCTATCA
1 TCTTTGAAGAGAGAATCTATCA
*
1590079 TCTTTGAAGAGAGAATCTGTCA
1 TCTTTGAAGAGAGAATCTATCA
* *
1590101 TATTTGAAGAGAAAATCTATCA
1 TCTTTGAAGAGAGAATCTATCA
1590123 TCTTTGAAGA
1 TCTTTGAAGA
1590133 ATGTATATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (22 bp):
TCTTTGAAGAGAGAATCTATCA
Found at i:1590791 original size:18 final size:18
Alignment explanation
Indices: 1590754--1590791 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1590744 TATATGAAAT
* *
1590754 AATAAATTTAATTTCGAA
1 AATAAATTGAATTTCAAA
1590772 AATAAATTGAATTTCAAA
1 AATAAATTGAATTTCAAA
1590790 AA
1 AA
1590792 GATAATCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (18 bp):
AATAAATTGAATTTCAAA
Found at i:1595193 original size:13 final size:13
Alignment explanation
Indices: 1595177--1595201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1595167 TGTCCTTCTA
1595177 TTTTCACCTCTTC
1 TTTTCACCTCTTC
1595190 TTTTCACCTCTT
1 TTTTCACCTCTT
1595202 TGTTCTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTCACCTCTTC
Found at i:1602664 original size:25 final size:23
Alignment explanation
Indices: 1602611--1602664 Score: 54
Period size: 25 Copynumber: 2.2 Consensus size: 23
1602601 TTTCTTTGAT
*
1602611 ATTAAAAATAAATAAATATTATT
1 ATTAAAAATAAATAAATATTATG
* *
1602634 ATTTAAACAATATATATATATATATG
1 A-TTAAA-AATAAATAAATAT-TATG
1602660 ATTAA
1 ATTAA
1602665 GATAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 5 0.20
25 15 0.60
26 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTAAAAATAAATAAATATTATG
Found at i:1606356 original size:54 final size:54
Alignment explanation
Indices: 1606283--1606671 Score: 526
Period size: 54 Copynumber: 7.3 Consensus size: 54
1606273 TTCGTTGAGA
* * ** * *
1606283 TGCACACTTAGTGCTTATACGATCATTCATAAACATATTATGAATTCTGT-GGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
*
1606336 T-CACACCTATAGTGCCTATACGGTTGTTCATCAATATATGATGAATTAC-GTGGGT
1 TGCACA-CT-TAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CTGTGGGT
* *
1606391 TGCACACTTAGGGCC--TA---TTGTTCATCAACATATGATGAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* *
1606440 TGCACAATTAGTGCCTATACAGTTGTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* *
1606494 TGCACACTTAGTGCCTATACGGTTGTTCATTAACATATGATGAATT-TCGTGGAT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCT-GTGGGT
*
1606548 TGCACACTTAGTGCCTATATGGTTGTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* **
1606602 TGCACACTTAGTGCCTATATGGTTGTTCATCAACATATGATGAATTCCATGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
1606656 TGCACACTTAGTGCCT
1 TGCACACTTAGTGCCT
1606672 TTAATAACAT
Statistics
Matches: 302, Mismatches: 21, Indels: 25
0.87 0.06 0.07
Matches are distributed among these distances:
48 1 0.00
49 42 0.14
51 2 0.01
52 6 0.02
53 4 0.01
54 235 0.78
55 8 0.03
56 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
Found at i:1606688 original size:16 final size:16
Alignment explanation
Indices: 1606667--1606697 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1606657 GCACACTTAG
*
1606667 TGCCTTTAATAACATA
1 TGCCTTTAACAACATA
1606683 TGCCTTTAACAACAT
1 TGCCTTTAACAACAT
1606698 GCATATCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (16 bp):
TGCCTTTAACAACATA
Found at i:1626748 original size:54 final size:54
Alignment explanation
Indices: 1626682--1627128 Score: 648
Period size: 54 Copynumber: 8.3 Consensus size: 54
1626672 TTCGTTGAGA
* * * * * *
1626682 TGCACACGTAGTGCATATACGGTTATTCATAAACATATTATGAATTCCAT-GGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
* * **
1626735 TCGCACA-TATAGTGCCTATACGGTTGTTCATCAATATATGATTAATTATGT-GGT
1 T-GCACACT-TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
**
1626789 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
* * * * * *
1626843 TGCATATTTAGTGCATATACGGTTGTTCATCAATATTTGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
*
1626897 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
1626951 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
*
1627005 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
**
1627059 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCAATGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
*
1627113 TGCACACTTGGTGCCT
1 TGCACACTTAGTGCCT
1627129 TTAACAACAT
Statistics
Matches: 359, Mismatches: 31, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
53 46 0.13
54 313 0.87
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
Found at i:1627145 original size:16 final size:16
Alignment explanation
Indices: 1627124--1627154 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1627114 GCACACTTGG
1627124 TGCCTTTAACAACATA
1 TGCCTTTAACAACATA
*
1627140 TGCCTTTAATAACAT
1 TGCCTTTAACAACAT
1627155 GCATATCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (16 bp):
TGCCTTTAACAACATA
Found at i:1630839 original size:36 final size:36
Alignment explanation
Indices: 1630787--1630868 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
1630777 ATTTTTTAGC
* *
1630787 ATAAACAATCAGCACCACCGTCGGAAAAGAAGAAAG
1 ATAAACAATCAACACCACCGACGGAAAAGAAGAAAG
*
1630823 ATAAACAATCAACACCATCGACGGAAAAGAAGAAAG
1 ATAAACAATCAACACCACCGACGGAAAAGAAGAAAG
*
1630859 ATATACAATC
1 ATAAACAATC
1630869 TGCAACACCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.52, C:0.21, G:0.16, T:0.11
Consensus pattern (36 bp):
ATAAACAATCAACACCACCGACGGAAAAGAAGAAAG
Found at i:1631482 original size:12 final size:12
Alignment explanation
Indices: 1631467--1631491 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1631457 AGATGATGAA
1631467 GAAGAAGAAGAG
1 GAAGAAGAAGAG
1631479 GAAGAAGAAGAG
1 GAAGAAGAAGAG
1631491 G
1 G
1631492 GGGAGGAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAGAG
Found at i:1631485 original size:18 final size:18
Alignment explanation
Indices: 1631464--1631508 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1631454 CGAAGATGAT
1631464 GAAGAAGAAGAAGAGGAA
1 GAAGAAGAAGAAGAGGAA
* ** *
1631482 GAAGAAGAGGGGGAGGAG
1 GAAGAAGAAGAAGAGGAA
1631500 GAAGAAGAA
1 GAAGAAGAA
1631509 ATCGTGCAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAGAAGAGGAA
Found at i:1632992 original size:2 final size:2
Alignment explanation
Indices: 1632979--1633009 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1632969 TTATCTAAAA
*
1632979 AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1633010 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1633014 original size:2 final size:2
Alignment explanation
Indices: 1633009--1633049 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1632999 ACACACACAC
1633009 AT AT AT AT 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 AT AT AT AT A
1633050 AAATTAACTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1642058 original size:141 final size:141
Alignment explanation
Indices: 1641799--1642058 Score: 405
Period size: 141 Copynumber: 1.8 Consensus size: 141
1641789 ACGACACTGC
*
1641799 TCATACGCGATGAAGAAGTCTGGCCATCTTTAGGAAGGGTGATAACTCTGTTCCTACGTGATGAG
1 TCATACGCGATGAAGAAGTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAG
* * *
1641864 GACGGTTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGTCTAAGGGTA
66 GACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATATGGTCGTCTAAGGGTA
1641929 GATGACACGAT
131 GATGACACGAT
* *
1641940 TCATACGTGATGAAGAATTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAG
1 TCATACGCGATGAAGAAGTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAG
* * * * *
1642005 GATGGCTGGTTATCCTAATGTTGACAC-TCTCCTACGTGCTGAGGAGATATGGTC
66 GACGGCTGGTTAT-CTAAGGGTGACACGGCTCCTACGTGATGAGGAGATATGGTC
1642059 AGTTGATGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
141 96 0.90
142 11 0.10
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (141 bp):
TCATACGCGATGAAGAAGTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAG
GACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATATGGTCGTCTAAGGGTA
GATGACACGAT
Found at i:1643048 original size:10 final size:10
Alignment explanation
Indices: 1643035--1643060 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1643025 TTTTTCTTTA
1643035 TTTTTCTCAT
1 TTTTTCTCAT
1643045 TTTTTCTCAT
1 TTTTTCTCAT
1643055 TTTTTC
1 TTTTTC
1643061 ATTTTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTCTCAT
Found at i:1643048 original size:19 final size:19
Alignment explanation
Indices: 1643024--1643067 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1643014 TCGTTTATTT
*
1643024 ATTTTTCT-TTATTTTTCTC
1 ATTTTTCTCTCATTTTT-TC
1643043 ATTTTT-TCTCATTTTTTC
1 ATTTTTCTCTCATTTTTTC
1643061 ATTTTTC
1 ATTTTTC
1643068 ATTTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTTTCTCTCATTTTTTC
Found at i:1643050 original size:20 final size:18
Alignment explanation
Indices: 1643034--1643081 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 18
1643024 ATTTTTCTTT
1643034 ATTTTTCTCATTTTTTCTC
1 ATTTTT-TCATTTTTTCTC
1643053 ATTTTTTCA--TTTT-TC
1 ATTTTTTCATTTTTTCTC
1643068 ATTTTTTCATTTTT
1 ATTTTTTCATTTTT
1643082 GTCTTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.41
16 4 0.15
17 3 0.11
18 3 0.11
19 6 0.22
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTTCATTTTTTCTC
Found at i:1643081 original size:8 final size:8
Alignment explanation
Indices: 1643034--1643081 Score: 62
Period size: 8 Copynumber: 5.8 Consensus size: 8
1643024 ATTTTTCTTT
1643034 ATTTTTCTC
1 ATTTTT-TC
1643043 ATTTTTTCTC
1 A-TTTTT-TC
1643053 ATTTTTTC
1 ATTTTTTC
1643061 A-TTTTTC
1 ATTTTTTC
1643068 ATTTTTTC
1 ATTTTTTC
1643076 ATTTTT
1 ATTTTT
1643082 GTCTTTTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.19
8 15 0.41
9 6 0.16
10 9 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTTTC
Found at i:1660319 original size:26 final size:27
Alignment explanation
Indices: 1660290--1660344 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
1660280 GCTTATGCTC
1660290 TTAGAT-ATTTTTATGCTAAAAGTTTG
1 TTAGATAATTTTTATGCTAAAAGTTTG
* *
1660316 TTAGGTAATTTTTATGCTAAAATTTTG
1 TTAGATAATTTTTATGCTAAAAGTTTG
1660343 TT
1 TT
1660345 CAGTTCCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.53
Consensus pattern (27 bp):
TTAGATAATTTTTATGCTAAAAGTTTG
Found at i:1661491 original size:33 final size:33
Alignment explanation
Indices: 1661449--1661515 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1661439 AAAAAACTAG
* *
1661449 TATATTTCTTTAATC-TTGAAGATTTTAATTTTT
1 TATATTTCTTGAAACGTT-AAGATTTTAATTTTT
1661482 TATATTTCTTGAAACGTTAAGATTTTAATTTTT
1 TATATTTCTTGAAACGTTAAGATTTTAATTTTT
1661515 T
1 T
1661516 TTTACCTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.58
Consensus pattern (33 bp):
TATATTTCTTGAAACGTTAAGATTTTAATTTTT
Found at i:1674315 original size:9 final size:9
Alignment explanation
Indices: 1674301--1674328 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1674291 AATCCTCGTG
1674301 CTTCAATTC
1 CTTCAATTC
1674310 CTTCAATTC
1 CTTCAATTC
1674319 CTTCAATTC
1 CTTCAATTC
1674328 C
1 C
1674329 CTCTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (9 bp):
CTTCAATTC
Found at i:1674418 original size:60 final size:60
Alignment explanation
Indices: 1674350--1674467 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
1674340 CAATTCCCAA
*
1674350 ATTGCTCTCCATAATCCCTAACCCTCGTTCCTCTCTTCCC-AATTCCTCTCCGCTCCTTTG
1 ATTGCTCTCCATAATCCCTAACCCTCGTTCCTCTC-TCCCTAATTCCTCTCCACTCCTTTG
* * *
1674410 ATTGCTCTCTATAATCCCTAACCCTCTTTCCTCTCTCCCTAATTCCTCTTCACTCCTT
1 ATTGCTCTCCATAATCCCTAACCCTCGTTCCTCTCTCCCTAATTCCTCTCCACTCCTT
1674468 CGTTCTTGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 4 0.08
60 49 0.92
ACGTcount: A:0.14, C:0.42, G:0.04, T:0.39
Consensus pattern (60 bp):
ATTGCTCTCCATAATCCCTAACCCTCGTTCCTCTCTCCCTAATTCCTCTCCACTCCTTTG
Found at i:1679466 original size:18 final size:18
Alignment explanation
Indices: 1679443--1679488 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
1679433 CTTCAATTCC
1679443 TTCAATTCCCTCTTTTAT
1 TTCAATTCCCTCTTTTAT
1679461 TTCAATTCCCTCTTTTAT
1 TTCAATTCCCTCTTTTAT
1679479 TTCAATTCCC
1 TTCAATTCCC
1679489 AAATTGCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.52
Consensus pattern (18 bp):
TTCAATTCCCTCTTTTAT
Found at i:1679559 original size:60 final size:60
Alignment explanation
Indices: 1679491--1679610 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
1679481 CAATTCCCAA
* *
1679491 ATTGCTCTCCATAATCCCTAACCCTCGTTCCTCTCTTCCCAATTCCTCTTCGCTCCTTCG
1 ATTGCTCTCCATAATCCCTAACCCTCGTTCCTCTCTCCCCAATTCCTCTTCACTCCTTCG
*
1679551 ATTGCTCTCCATAATCCCTAACCCTCTTTCCTCTCTCCCCAATTCCTCTTCACTCCTTCG
1 ATTGCTCTCCATAATCCCTAACCCTCGTTCCTCTCTCCCCAATTCCTCTTCACTCCTTCG
1679611 TTCTTCCTCT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.14, C:0.44, G:0.05, T:0.37
Consensus pattern (60 bp):
ATTGCTCTCCATAATCCCTAACCCTCGTTCCTCTCTCCCCAATTCCTCTTCACTCCTTCG
Found at i:1679636 original size:12 final size:12
Alignment explanation
Indices: 1679619--1679644 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1679609 CGTTCTTCCT
1679619 CTTCTCCTCCGA
1 CTTCTCCTCCGA
1679631 CTTCTCCTCCGA
1 CTTCTCCTCCGA
1679643 CT
1 CT
1679645 CTAACAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.50, G:0.08, T:0.35
Consensus pattern (12 bp):
CTTCTCCTCCGA
Found at i:1680809 original size:15 final size:15
Alignment explanation
Indices: 1680789--1680828 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
1680779 AAAGCAACGG
1680789 CAGCAGCAGCCTGTA
1 CAGCAGCAGCCTGTA
1680804 CAGCAGCAGCCTGTA
1 CAGCAGCAGCCTGTA
1680819 CAGCAGCAGC
1 CAGCAGCAGC
1680829 AACAACAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.28, C:0.35, G:0.28, T:0.10
Consensus pattern (15 bp):
CAGCAGCAGCCTGTA
Found at i:1684110 original size:2 final size:2
Alignment explanation
Indices: 1684100--1684183 Score: 68
Period size: 2 Copynumber: 42.5 Consensus size: 2
1684090 AAATTAAAAA
* * *
1684100 AT AT A- AT AT AT AT AT AT AT AT A- AT AT A- AGT TT GT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* *
1684140 ACT AT AT AT AT AT AT AT AT AT AT AT AA ACT AT AT TT AT AT -T AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
1684183 A
1 A
1684184 AACTATATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
1 4 0.06
2 60 0.91
3 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1684152 original size:27 final size:27
Alignment explanation
Indices: 1684136--1684298 Score: 103
Period size: 27 Copynumber: 6.1 Consensus size: 27
1684126 AAGTTTGTAT
1684136 ATAAACTATATATATATATATATATAT
1 ATAAACTATATATATATATATATATAT
* *
1684163 ATAAACTATATTTATAT-TATAAACTAT
1 ATAAACTATATATATATATATATA-TAT
1684190 AT-AA-T-TAT-TATA-AGT-TATATAT
1 ATAAACTATATATATATA-TATATATAT
* * *
1684212 ATAAATTATGTTTATATGA-ACTATATAT
1 ATAAACTATATATATAT-ATA-TATATAT
* * *
1684240 ATAAACTATA-AAAAATATATA-ATTT
1 ATAAACTATATATATATATATATATAT
*
1684265 ATAAACTATAATTTATATTAATATAGTATAT
1 ATAAACTAT-ATATATA-T-ATATA-TATAT
1684296 ATA
1 ATA
1684299 TATTATTCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 32
0.69 0.09 0.21
Matches are distributed among these distances:
22 5 0.05
23 9 0.09
24 5 0.05
25 15 0.14
26 15 0.14
27 27 0.26
28 17 0.16
29 5 0.05
31 6 0.06
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (27 bp):
ATAAACTATATATATATATATATATAT
Found at i:1684155 original size:44 final size:42
Alignment explanation
Indices: 1684100--1684242 Score: 132
Period size: 44 Copynumber: 3.2 Consensus size: 42
1684090 AAATTAAAAA
1684100 ATATAATATATATATATATATAATATAAGTTTGTATATAAACT
1 ATATAATATATATATATATATAATATAA-TTTGTATATAAACT
*
1684143 ATATATATATATATATATATATAA-ACTATATTTATATTATAAACT
1 ATATA-ATATATATATATATATAATA-TA-ATTTGTA-TATAAACT
* *
1684188 ATATAATTATTATAAGTTATATATATAA-ATTATGTT-TATATGAACT
1 ATATAA-TA-TAT-A--TATATATATAATATAAT-TTGTATATAAACT
1684234 ATAT-ATATA
1 ATATAATATA
1684243 AACTATAAAA
Statistics
Matches: 87, Mismatches: 3, Indels: 20
0.79 0.03 0.18
Matches are distributed among these distances:
43 8 0.09
44 28 0.32
45 17 0.20
46 14 0.16
47 5 0.06
48 3 0.03
49 12 0.14
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (42 bp):
ATATAATATATATATATATATAATATAATTTGTATATAAACT
Done.