Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 25 of 433
Found at i:6550585 original size:16 final size:15
Alignment explanation
Indices: 6550544--6550572 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6550534 GATTATAGTA
6550544 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
6550558 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
6550573 TGAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:6557240 original size:33 final size:33
Alignment explanation
Indices: 6557198--6557287 Score: 171
Period size: 33 Copynumber: 2.7 Consensus size: 33
6557188 TTTCTTCTTG
*
6557198 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
6557231 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
6557264 ACATTCCAGCTCCTGTCCAGCAAC
1 ACATTCCAGCTCCTGTCCAGCAAC
6557288 TGAAACAGAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.30, C:0.41, G:0.10, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:6565211 original size:2 final size:2
Alignment explanation
Indices: 6565204--6565230 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6565194 ACCCATCTTA
6565204 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6565231 AGTATATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6570112 original size:26 final size:24
Alignment explanation
Indices: 6570071--6570130 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
6570061 TTATTTCATT
* * *
6570071 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
6570095 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
6570121 AAATAAATAT
1 AAATAAATAT
6570131 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:6570142 original size:22 final size:22
Alignment explanation
Indices: 6570101--6570159 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
6570091 ATAATAAATC
* *
6570101 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
6570121 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
6570143 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
6570160 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:6570236 original size:15 final size:16
Alignment explanation
Indices: 6570206--6570238 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6570196 AAATAGTTAT
6570206 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
6570223 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
6570238 A
1 A
6570239 AAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:6583179 original size:9 final size:9
Alignment explanation
Indices: 6583165--6583222 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
6583155 ACAAGCTCAC
*
6583165 AAAATTATT
1 AAAATTATA
*
6583174 AAAATTAAA
1 AAAATTATA
6583183 AGAAATTAT-
1 A-AAATTATA
6583192 AAAATTATA
1 AAAATTATA
6583201 AAAATTACTA
1 AAAATTA-TA
*
6583211 GAAA-TATA
1 AAAATTATA
6583219 AAAA
1 AAAA
6583223 AAATACTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
8 12 0.29
9 18 0.44
10 11 0.27
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:6583196 original size:18 final size:18
Alignment explanation
Indices: 6583165--6583229 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
6583155 ACAAGCTCAC
*
6583165 AAAATTATTAAAATTAAA
1 AAAATTACTAAAATTAAA
*
6583183 AGAAATTA-TAAAATTATA
1 A-AAATTACTAAAATTAAA
6583201 AAAATTACTAGAAATATAAA
1 AAAATTACTA-AAAT-TAAA
*
6583221 AAAAATACT
1 AAAATTACT
6583230 TAAAGTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.15
18 13 0.32
19 10 0.25
20 11 0.28
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATTACTAAAATTAAA
Found at i:6583222 original size:27 final size:27
Alignment explanation
Indices: 6583165--6583221 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
6583155 ACAAGCTCAC
*
6583165 AAAATTATTAAAATTAAAAGAAATTAT
1 AAAATTATAAAAATTAAAAGAAATTAT
**
6583192 AAAATTATAAAAATTACTAGAAA-TAT
1 AAAATTATAAAAATTAAAAGAAATTAT
6583218 AAAA
1 AAAA
6583222 AAAATACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAATTATAAAAATTAAAAGAAATTAT
Found at i:6584076 original size:20 final size:21
Alignment explanation
Indices: 6584051--6584100 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
6584041 TTTTTACAAT
6584051 TTTTTTAAATTT-CTAAA-ATA
1 TTTTTTAAATTTAC-AAACATA
6584071 TTTTTTAAATTTACAAACATA
1 TTTTTTAAATTTACAAACATA
6584092 TTTCTTTAA
1 TTT-TTTAA
6584101 TTTGTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 15 0.56
21 7 0.26
22 5 0.19
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTTTAAATTTACAAACATA
Found at i:6591502 original size:12 final size:12
Alignment explanation
Indices: 6591487--6591520 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6591477 CAACCCAGAA
6591487 ATTCGATTCCCG
1 ATTCGATTCCCG
6591499 ATTCGATTCCCG
1 ATTCGATTCCCG
* *
6591511 TTTCTATTCC
1 ATTCGATTCC
6591521 TTCCTGCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.32, G:0.12, T:0.41
Consensus pattern (12 bp):
ATTCGATTCCCG
Found at i:6591801 original size:6 final size:6
Alignment explanation
Indices: 6591790--6591819 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6591780 TTTTATTTTG
6591790 GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT
1 GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT
6591820 CTTATTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.33, T:0.50
Consensus pattern (6 bp):
GCTGTT
Found at i:6591947 original size:5 final size:5
Alignment explanation
Indices: 6591937--6591962 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6591927 GGTTTTATCA
6591937 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
6591963 GTTTAGCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:6594146 original size:15 final size:16
Alignment explanation
Indices: 6594126--6594158 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6594116 ATTGTTTAAC
6594126 TTTCTTTTCTT-TTCT
1 TTTCTTTTCTTGTTCT
*
6594141 TTTCTTTTTTTGTTCT
1 TTTCTTTTCTTGTTCT
6594157 TT
1 TT
6594159 AATTGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTCTTTTCTTGTTCT
Found at i:6603530 original size:2 final size:2
Alignment explanation
Indices: 6603521--6603549 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6603511 AGTTTTTTTC
6603521 AT AT -T 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
6603550 TTGACCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6606428 original size:2 final size:2
Alignment explanation
Indices: 6606423--6606455 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6606413 TAAAAAAAAA
6606423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6606456 ACTTTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6611960 original size:18 final size:17
Alignment explanation
Indices: 6611939--6611981 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
6611929 GGTATTTGTA
6611939 TCATTATTATTATTATTT
1 TCATTATTATTATT-TTT
*
6611957 TCATCATTATTATTTTT
1 TCATTATTATTATTTTT
6611974 T-ATTATTA
1 TCATTATTA
6611982 ATGTTGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 6 0.26
17 4 0.17
18 13 0.57
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (17 bp):
TCATTATTATTATTTTT
Found at i:6612894 original size:14 final size:14
Alignment explanation
Indices: 6612875--6612910 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6612865 AACGAGATAA
*
6612875 AATTGGGAGTTGGG
1 AATTGGAAGTTGGG
6612889 AATTGGAAGTTGGG
1 AATTGGAAGTTGGG
*
6612903 AGTTGGAA
1 AATTGGAA
6612911 ACCTAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.44, T:0.28
Consensus pattern (14 bp):
AATTGGAAGTTGGG
Found at i:6622332 original size:3 final size:3
Alignment explanation
Indices: 6622324--6622355 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6622314 ATGCTGAAAC
6622324 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6622356 AACAAATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6627255 original size:21 final size:20
Alignment explanation
Indices: 6627209--6627264 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
6627199 ATCAGTTCAT
*
6627209 TTTATTTTTTTATTTTAACC
1 TTTATTTTTTTATTTTAACA
* **
6627229 TGTATTATTTTTATTTTATTA
1 TTTATT-TTTTTATTTTAACA
*
6627250 TTTATTCTTTTATTT
1 TTTATTTTTTTATTT
6627265 GTATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTATTTTTTTATTTTAACA
Found at i:6628940 original size:22 final size:22
Alignment explanation
Indices: 6628899--6628940 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6628889 TTATATCTAT
*
6628899 ACAAACAAAAATAAATAAATAA
1 ACAAACAAAAATAAAGAAATAA
6628921 ACAAACAAAAA-AAGAGAAAT
1 ACAAACAAAAATAA-AGAAAT
6628941 TTTTACCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.76, C:0.10, G:0.05, T:0.10
Consensus pattern (22 bp):
ACAAACAAAAATAAAGAAATAA
Found at i:6629568 original size:27 final size:27
Alignment explanation
Indices: 6629535--6629597 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
6629525 ATATTTTAAA
* *
6629535 TATTATTTATATTATCCTTATGACTAT
1 TATTATTTATATTATCATTATCACTAT
* * *
6629562 TATTATTAATATTCTTATTATCACTAT
1 TATTATTTATATTATCATTATCACTAT
6629589 TATT-TTTAT
1 TATTATTTAT
6629598 TCATTTTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTATTTATATTATCATTATCACTAT
Found at i:6629598 original size:24 final size:26
Alignment explanation
Indices: 6629535--6629619 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
6629525 ATATTTTAAA
* *
6629535 TATTATTTATATT-ATCCTTATGACTAT
1 TATTA-TTATATTCAT-TTTATCACTAT
6629562 TATTATTAATATTC-TTATTATCACTAT
1 TATTATT-ATATTCATT-TTATCACTAT
*
6629589 TATT-TT-TATTCATTTTATCAATA-
1 TATTATTATATTCATTTTATCACTAT
6629612 TATTATTA
1 TATTATTA
6629620 CTACAGTTAC
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.08
24 15 0.31
25 2 0.04
26 4 0.08
27 24 0.49
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (26 bp):
TATTATTATATTCATTTTATCACTAT
Found at i:6629606 original size:27 final size:27
Alignment explanation
Indices: 6629552--6629619 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 27
6629542 TATATTATCC
*
6629552 TTATGACTATTATTATTAATATTCTTA
1 TTATCACTATTATTATTAATATTCTTA
6629579 TTATCACTATTATT-TT--TATTCATT-
1 TTATCACTATTATTATTAATATTC-TTA
*
6629603 TTATCAATA-TATTATTA
1 TTATCACTATTATTATTA
6629620 CTACAGTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 4 0.11
24 15 0.42
25 2 0.06
26 2 0.06
27 13 0.36
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.57
Consensus pattern (27 bp):
TTATCACTATTATTATTAATATTCTTA
Found at i:6629891 original size:27 final size:27
Alignment explanation
Indices: 6629838--6629904 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
6629828 TCATGTACAA
*
6629838 ATTATTTATATTATTTTTATGATTATT
1 ATTATTTATATTATTTTTATGACTATT
6629865 ATTATTGTAT-TTATTTTTACT-ACTATT
1 ATTATT-TATATTATTTTTA-TGACTATT
*
6629892 -TAATTTATTATTA
1 ATTATTTA-TATTA
6629905 GTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
25 2 0.06
26 5 0.15
27 23 0.68
28 4 0.12
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (27 bp):
ATTATTTATATTATTTTTATGACTATT
Found at i:6630040 original size:12 final size:11
Alignment explanation
Indices: 6630020--6630058 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
6630010 TATTTTTAAC
*
6630020 ATATGTATGTA
1 ATATTTATGTA
6630031 TATATTTATGTA
1 -ATATTTATGTA
6630043 ATA-TTATGTA
1 ATATTTATGTA
6630053 ATATTT
1 ATATTT
6630059 GTTTTTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 10 0.40
11 5 0.20
12 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (11 bp):
ATATTTATGTA
Found at i:6630376 original size:154 final size:154
Alignment explanation
Indices: 6630096--6630404 Score: 548
Period size: 154 Copynumber: 2.0 Consensus size: 154
6630086 ATGTATACAT
* *
6630096 TGTAACGCCCCAATTTTCGGGAATTCTGTGAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
1 TGTAACGCCCCAATTTTCGGGAATCCTGTGAAGGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
*
6630161 CTAGAAGGCCCAAGCTTAAGATAGAACCCGGCAATTTCAGTTAATTTTTGTTCCATAAGAAAAAA
66 CTAGAAGGCCCAAGCTTAAGATAAAACCCGGCAATTTCAGTTAATTTTTGTTCCATAAG-AAAAA
6630226 GGG-GTGAAATTATGAAATAGAACC
130 GGGAGTGAAATTATGAAATAGAACC
6630250 TGTAACGCCCCAATTTTCGGGAATCCTGTGAAGGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
1 TGTAACGCCCCAATTTTCGGGAATCCTGTGAAGGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
* *
6630315 CTAGAAGGCCCAAGCTTAAGATAAAACCCGGTAATTTTAGTTAATTTTTGTTCCATAAGAAAAAG
66 CTAGAAGGCCCAAGCTTAAGATAAAACCCGGCAATTTCAGTTAATTTTTGTTCCATAAGAAAAAG
*
6630380 GGAGTGAAATTATGAAATAGGACC
131 GGAGTGAAATTATGAAATAGAACC
6630404 T
1 T
6630405 ATGTGAAAAT
Statistics
Matches: 148, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
153 8 0.05
154 140 0.95
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (154 bp):
TGTAACGCCCCAATTTTCGGGAATCCTGTGAAGGTTGGCATAGGTTTAATTATGTTAGTGGGCCT
CTAGAAGGCCCAAGCTTAAGATAAAACCCGGCAATTTCAGTTAATTTTTGTTCCATAAGAAAAAG
GGAGTGAAATTATGAAATAGAACC
Found at i:6630619 original size:26 final size:26
Alignment explanation
Indices: 6630583--6630692 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
6630573 TGATACAAAT
6630583 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
6630609 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
6630635 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* **
6630661 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATAGGTTAGGTAAATGTTCCA
6630687 TGATAA
1 TGATAA
6630693 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:6637732 original size:51 final size:51
Alignment explanation
Indices: 6637677--6637784 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
6637667 TGATACAAAT
6637677 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTCCA
* *
6637728 TGATAATGGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTCCA
6637779 TGATAA
1 TGATAA
6637785 GAATTTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 9 0.17
51 45 0.83
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:6637746 original size:26 final size:26
Alignment explanation
Indices: 6637677--6637784 Score: 184
Period size: 25 Copynumber: 4.2 Consensus size: 26
6637667 TGATACAAAT
*
6637677 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6637703 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6637728 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6637753 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6637779 TGATAA
1 TGATAA
6637785 GAATTTCATG
Statistics
Matches: 80, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
25 50 0.62
26 30 0.38
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6639295 original size:26 final size:26
Alignment explanation
Indices: 6639266--6639318 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6639256 TTTACAGTTT
6639266 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6639292 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6639318 T
1 T
6639319 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6640632 original size:26 final size:26
Alignment explanation
Indices: 6640603--6640710 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 26
6640593 TGGTACAAAT
*
6640603 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* * *
6640629 TGATAATAGATTAGGTAAATATTCCT
1 TGATAATGGATTAGGTAAATGTTCCA
6640655 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* * * *
6640681 TGATAATTGTTTAGGTAAATCTGCCA
1 TGATAATGGATTAGGTAAATGTTCCA
6640707 TGAT
1 TGAT
6640711 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:6640669 original size:52 final size:52
Alignment explanation
Indices: 6640602--6640700 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
6640592 ATGGTACAAA
*
6640602 TTGATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCC
1 TTGATAATGGATTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCC
* *
6640654 TTGATAATGGATTAGGTAAATGTTCCATGATAATTGTTTAGGTAAAT
1 TTGATAATGGATTAGGTAAATGTTCCATGATAATAGATTAGGTAAAT
6640701 CTGCCATGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.38
Consensus pattern (52 bp):
TTGATAATGGATTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCC
Found at i:6643342 original size:14 final size:14
Alignment explanation
Indices: 6643323--6643352 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6643313 TACATCATTT
6643323 TTTTTAATACTATA
1 TTTTTAATACTATA
6643337 TTTTTAATACTATA
1 TTTTTAATACTATA
6643351 TT
1 TT
6643353 ATGTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:6643441 original size:64 final size:57
Alignment explanation
Indices: 6643373--6643491 Score: 132
Period size: 64 Copynumber: 2.0 Consensus size: 57
6643363 TTTTACATGC
*
6643373 ATTATGTACATATTTTCAATAACTATATCATATGTATATATTTTATGTACATACTT-TTAATATT
1 ATTATGTACATATTTT---TAA-TAGAT-ATATGTATATA-TTTATGTA-ATA-TTATTAATATT
**
6643437 ATTATGTATTTATTTTTAATAGATATATGTATATATTTATGTAATATTATTAATA
1 ATTATGTACATATTTTTAATAGATATATGTATATATTTATGTAATATTATTAATA
6643492 GTCTTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
56 2 0.04
57 9 0.18
58 8 0.16
59 11 0.22
60 4 0.08
61 3 0.06
64 14 0.27
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (57 bp):
ATTATGTACATATTTTTAATAGATATATGTATATATTTATGTAATATTATTAATATT
Found at i:6643457 original size:23 final size:23
Alignment explanation
Indices: 6643333--6643416 Score: 53
Period size: 23 Copynumber: 3.3 Consensus size: 23
6643323 TTTTTAATAC
6643333 TATATTTTTAATACTATATTATGTA
1 TATATTTTTAATA-T-TATTATGTA
**
6643358 TATATTTTTACAT-GCATTATGTA
1 TATATTTTTA-ATATTATTATGTA
* *
6643381 CATATTTTCAATAACTATATCATATGTA
1 TATATTTTTAAT-A-T-TAT--TATGTA
6643409 TATATTTT
1 TATATTTT
6643417 ATGTACATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
22 2 0.04
23 16 0.36
25 10 0.22
26 4 0.09
28 13 0.29
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATTTTTAATATTATTATGTA
Found at i:6644871 original size:3 final size:3
Alignment explanation
Indices: 6644858--6644906 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
6644848 TTTATAAATT
* *
6644858 TTA TCA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
6644904 TTA
1 TTA
6644907 GTATATACTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:6645146 original size:3 final size:3
Alignment explanation
Indices: 6645138--6645170 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
6645128 TGTATTTCAA
6645138 TAT TAT TAT TA- TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
6645171 AATAGTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.86
4 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6645183 original size:21 final size:20
Alignment explanation
Indices: 6645137--6645189 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
6645127 TTGTATTTCA
*
6645137 ATATTATTATTATATTTATT
1 ATATTATTATTATATATATT
6645157 ATTATTATTATTATA-ATAGTGT
1 A-TATTATTATTATATATA-T-T
*
6645179 ATATTTTTATT
1 ATATTATTATT
6645190 TATGTACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
ATATTATTATTATATATATT
Found at i:6645390 original size:20 final size:21
Alignment explanation
Indices: 6645367--6645419 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
6645357 GTTATATACG
*
6645367 TATATATATTATGTGTATT-T
1 TATATATATTATGTATATTAT
6645387 TATATATATTATGTATATTAT
1 TATATATATTATGTATATTAT
* *
6645408 TATTTTTATTAT
1 TATATATATTAT
6645420 ACATATTACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TATATATATTATGTATATTAT
Found at i:6645484 original size:21 final size:21
Alignment explanation
Indices: 6645460--6645507 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6645450 ATTCATGTAT
*
6645460 TTTATGATATATGTA-TATATC
1 TTTATGATATAT-AAGTATATC
6645481 TTTAAT-ATATATAAGTATATC
1 TTT-ATGATATATAAGTATATC
6645502 TTTATG
1 TTTATG
6645508 TAATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
20 3 0.13
21 18 0.78
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (21 bp):
TTTATGATATATAAGTATATC
Found at i:6645704 original size:27 final size:28
Alignment explanation
Indices: 6645674--6645740 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
6645664 ATTCTATTAT
*
6645674 ATTTTTCATATTATATCATGTATATAC-
1 ATTTTTCATATTATATCATGTACATACA
* *
6645701 ATTTTTCATA-TATGTCATGTACATGCA
1 ATTTTTCATATTATATCATGTACATACA
6645728 ATTTTTCAATATT
1 ATTTTTC-ATATT
6645741 CATTTTATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.38
27 17 0.50
28 3 0.09
29 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (28 bp):
ATTTTTCATATTATATCATGTACATACA
Found at i:6645718 original size:26 final size:25
Alignment explanation
Indices: 6645674--6645752 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 25
6645664 ATTCTATTAT
6645674 ATTTTTCATATTATATCATGTATATAC
1 ATTTTTCATA-TAT-TCATGTATATAC
* *
6645701 ATTTTTCATATATGTCATGTACATGC
1 ATTTTTCATATAT-TCATGTATATAC
*
6645727 AATTTTTCA-ATATTCAT-TTTATAC
1 -ATTTTTCATATATTCATGTATATAC
6645751 AT
1 AT
6645753 ATAAATGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.04
24 4 0.09
25 4 0.09
26 17 0.38
27 18 0.40
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.51
Consensus pattern (25 bp):
ATTTTTCATATATTCATGTATATAC
Found at i:6651760 original size:15 final size:15
Alignment explanation
Indices: 6651740--6651769 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6651730 GCCATCTCCT
6651740 TTCCCCTACAAGGAC
1 TTCCCCTACAAGGAC
6651755 TTCCCCTACAAGGAC
1 TTCCCCTACAAGGAC
6651770 AATAAAGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.13, T:0.20
Consensus pattern (15 bp):
TTCCCCTACAAGGAC
Found at i:6657982 original size:70 final size:72
Alignment explanation
Indices: 6657906--6658049 Score: 204
Period size: 70 Copynumber: 2.0 Consensus size: 72
6657896 TGTTTTCAAA
* * *
6657906 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-GACATGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGAGTGACATGCCGAGGTATTTTCAAATTCT
6657969 GCTT-TTC
66 G-TTGTTC
* * *
6657976 AATCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTGACATTCCGAGGTATTTTCAAATTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGAGTGACATGCCGAGGTATTTTCAAATTCT
6658041 GTTGTTC
66 GTTGTTC
6658048 AA
1 AA
6658050 ATTCTATTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
70 33 0.51
71 3 0.05
72 29 0.45
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (72 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGAGTGACATGCCGAGGTATTTTCAAATTCT
GTTGTTC
Found at i:6658164 original size:72 final size:72
Alignment explanation
Indices: 6658080--6658223 Score: 193
Period size: 72 Copynumber: 2.0 Consensus size: 72
6658070 TTTTCAAAAG
* * * * *
6658080 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGTTCACGTACTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGA-ACTTCGGGTCACATACCGAGGTATTTTCAAATTCTG
6658144 CTT-TTCAA
65 -TTGTTCAA
* *
6658152 TCAACTCATATTGCTAGAGGTGAGTTGAACTTCGGGTCACATGCCGAGGTATTTTCAAATTCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTCACATACCGAGGTATTTTCAAATTCTGT
6658217 TGTTCAA
66 TGTTCAA
6658224 ATTCTGTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
71 5 0.08
72 58 0.92
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAACTTCGGGTCACATACCGAGGTATTTTCAAATTCTGT
TGTTCAA
Found at i:6658185 original size:174 final size:174
Alignment explanation
Indices: 6657884--6658755 Score: 1266
Period size: 174 Copynumber: 5.0 Consensus size: 174
6657874 GATATTTTGA
* *
6657884 TGTTTTTAT-TTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
1 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTTC
* *
6657944 ACATGCTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACT
65 ACGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACT
* *
6658009 TCGGGTGACATTCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
130 TCGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
*
6658054 TATTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
1 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
*
6658119 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCTAGAGGTGAGTTGAACTT
66 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
6658184 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
131 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
* *
6658228 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTACGAGAGGTAAGTTGAGCCTTGGTTCA
1 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
* *
6658293 CATACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAAAGGTGAGTTGAACTT
66 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
6658358 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
131 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
*
6658402 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGTTCA
1 TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
*
6658467 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTAAACTT
66 CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
*
6658532 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTCCAAATTC
131 CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
* * * * ** *
6658576 TGTTTTAAT-TTCTACTTTTCCAAAA-TTAACTTC-TATTGCGAGAGATGAGTTGAGCCTCAGAT
1 TGTTTTTATCTTCTAGTTTT-CAAAAGTCAAC-TCATATTGCGAGAGGTGAGTTGAGCCTTGGTT
* * * *
6658638 CACG--CTGAGGTATTTTCAGTTTATG--TTTCAAAAAAATCAACTCATATTACGAAAGGTGAGT
64 CACGTACTGAGGTATTTTCAATTTCTGCTTTTC-----AATCAACTCATATTGCGAGAGGTGAGT
* * * * ** *
6658699 TGAGCCTT-GGTTCACATGCTGTGGTATTTTCAGTTTCTGTTTTTCAAATTAC
124 TGA-ACTTCGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATT-C
6658751 TGTTT
1 TGTTT
6658756 GTCAAAAAGT
Statistics
Matches: 648, Mismatches: 40, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
169 4 0.01
170 8 0.01
171 25 0.04
172 42 0.06
173 43 0.07
174 517 0.80
175 9 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (174 bp):
TGTTTTTATCTTCTAGTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCA
CGTACTGAGGTATTTTCAATTTCTGCTTTTCAATCAACTCATATTGCGAGAGGTGAGTTGAACTT
CGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTC
Found at i:6658224 original size:14 final size:14
Alignment explanation
Indices: 6658205--6658231 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6658195 CCGAGGTATT
6658205 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
6658219 TTCAAATTCTGTT
1 TTCAAATTCTGTT
6658232 TTTATCTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:6658332 original size:72 final size:72
Alignment explanation
Indices: 6658254--6658397 Score: 184
Period size: 72 Copynumber: 2.0 Consensus size: 72
6658244 TTTTCAAAAG
* * * * *
6658254 TCAACTCATATTACGAGAGGTAAGTTGAGCCTT-GGTTCACATACTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTACGAAAGGTAAGTTGA-ACTTCGGGTCACATACCGAGGTATTTTCAAATTCTG
6658318 CTT-TTCAA
65 -TTGTTCAA
* * *
6658326 TCAACTCATATTGCGAAAGGTGAGTTGAACTTCGGGTCACATGCCGAGGTATTTTCAAATTCTGT
1 TCAACTCATATTACGAAAGGTAAGTTGAACTTCGGGTCACATACCGAGGTATTTTCAAATTCTGT
6658391 TGTTCAA
66 TGTTCAA
6658398 ATTCTGTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
71 5 0.08
72 57 0.92
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (72 bp):
TCAACTCATATTACGAAAGGTAAGTTGAACTTCGGGTCACATACCGAGGTATTTTCAAATTCTGT
TGTTCAA
Found at i:6658398 original size:14 final size:14
Alignment explanation
Indices: 6658379--6658405 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6658369 CCGAGGTATT
6658379 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
6658393 TTCAAATTCTGTT
1 TTCAAATTCTGTT
6658406 TTTATCTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:6658549 original size:72 final size:72
Alignment explanation
Indices: 6658428--6658563 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
6658418 TTTTCAAAAG
** * * * *
6658428 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGTTCACGTACTGAGGTATTTTCAATTTCTGC
1 TCAACTCATATTGCGAGAGGTGAGTTGAAACTTAGGTCACATACCGAGGTATTTTCAAATTCTGC
6658493 TTTTCAA
66 TTTTCAA
* *
6658500 TCAACTCATATTGCGAGAGGTGAGTT-AAACTTCGGGTCACATGCCGAGGTATTTTCAAATTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAAACTT-AGGTCACATACCGAGGTATTTTCAAATTCTG
6658564 TTGTCCAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 4 0.07
72 51 0.93
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAAACTTAGGTCACATACCGAGGTATTTTCAAATTCTGC
TTTTCAA
Found at i:6660933 original size:20 final size:20
Alignment explanation
Indices: 6660908--6660947 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6660898 CATTAAATTG
6660908 CTCAAAATGAAAATTATGTT
1 CTCAAAATGAAAATTATGTT
*
6660928 CTCAAAATGACAATTATGTT
1 CTCAAAATGAAAATTATGTT
6660948 ACTACATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (20 bp):
CTCAAAATGAAAATTATGTT
Found at i:6666431 original size:21 final size:21
Alignment explanation
Indices: 6666407--6666448 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6666397 TCATCAGATC
*
6666407 TACACCTTGAGGCATCGAGGG
1 TACACCTTGAGGAATCGAGGG
**
6666428 TACAGGTTGAGGAATCGAGGG
1 TACACCTTGAGGAATCGAGGG
6666449 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.38, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGAGGG
Found at i:6670475 original size:7 final size:7
Alignment explanation
Indices: 6670465--6670516 Score: 104
Period size: 7 Copynumber: 7.4 Consensus size: 7
6670455 CCCTTCTCCC
6670465 CTCCCCT
1 CTCCCCT
6670472 CTCCCCT
1 CTCCCCT
6670479 CTCCCCT
1 CTCCCCT
6670486 CTCCCCT
1 CTCCCCT
6670493 CTCCCCT
1 CTCCCCT
6670500 CTCCCCT
1 CTCCCCT
6670507 CTCCCCT
1 CTCCCCT
6670514 CTC
1 CTC
6670517 TGTTTTCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (7 bp):
CTCCCCT
Found at i:6671011 original size:3 final size:3
Alignment explanation
Indices: 6670980--6671046 Score: 86
Period size: 3 Copynumber: 23.0 Consensus size: 3
6670970 TTATTTAATT
* *
6670980 TTA TTA TT- TT- TTA TAA TT- TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6671025 TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA
6671047 GTATATACTC
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 6 0.11
3 48 0.84
4 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6671531 original size:18 final size:19
Alignment explanation
Indices: 6671508--6671547 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
6671498 TATATATGTA
*
6671508 TATATATTATGTGTATT-T
1 TATATATTATGTATATTAT
6671526 TATATATTATGTATATTAT
1 TATATATTATGTATATTAT
6671545 TAT
1 TAT
6671548 TTTTATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TATATATTATGTATATTAT
Found at i:6671533 original size:9 final size:9
Alignment explanation
Indices: 6671498--6671635 Score: 52
Period size: 9 Copynumber: 14.8 Consensus size: 9
6671488 TATGTTGTGT
6671498 TATATATGTA
1 TATATAT-TA
6671508 TATATATTA
1 TATATATTA
* * *
6671517 TGTGTATTT
1 TATATATTA
6671526 TATATATTA
1 TATATATTA
6671535 TGTATATTATTA
1 --TATA-TATTA
* *
6671547 TTTTTATTA
1 TATATATTA
*
6671556 TACATATTA
1 TATATATTA
6671565 CGTATATATTA
1 --TATATATTA
**
6671576 -A-ATATCG
1 TATATATTA
6671583 TAT-TATTCA
1 TATATATT-A
* *
6671592 TGTATTTTA
1 TATATATTA
6671601 TCATATATGTA
1 T-ATATAT-TA
*
6671612 TATATCTT-
1 TATATATTA
6671620 TA-ATATATA
1 TATATAT-TA
6671629 TATATAT
1 TATATAT
6671636 AAGTATATCT
Statistics
Matches: 92, Mismatches: 22, Indels: 28
0.65 0.15 0.20
Matches are distributed among these distances:
7 7 0.08
8 8 0.09
9 32 0.35
10 25 0.27
11 15 0.16
12 5 0.05
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (9 bp):
TATATATTA
Found at i:6671538 original size:16 final size:17
Alignment explanation
Indices: 6671508--6671548 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6671498 TATATATGTA
*
6671508 TATATATTATGTGTATTT
1 TATATATTA-GTGTATAT
6671526 TATATATTA-TGTATAT
1 TATATATTAGTGTATAT
6671542 TAT-TATT
1 TATATATT
6671549 TTTATTATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
18 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (17 bp):
TATATATTAGTGTATAT
Found at i:6671546 original size:30 final size:30
Alignment explanation
Indices: 6671498--6671575 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
6671488 TATGTTGTGT
*
6671498 TATA-TATGTATATATATTATGTGTATTTTA
1 TATATTATGTATAT-TATTATGTGTATTATA
* *
6671528 TATATTATGTATATTATTATTTTTATTATA
1 TATATTATGTATATTATTATGTGTATTATA
* *
6671558 CATATTACGTATA-TATTA
1 TATATTATGTATATTATTA
6671576 AATATCGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.12
30 28 0.67
31 9 0.21
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (30 bp):
TATATTATGTATATTATTATGTGTATTATA
Found at i:6671842 original size:27 final size:26
Alignment explanation
Indices: 6671811--6671861 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
6671801 AATATTCTAT
6671811 TATATTTTTCATATTATATCATGTATA
1 TATATTTTTCATA-TATATCATGTATA
*
6671838 TATATTTTTCATATATGTCATGTA
1 TATATTTTTCATATATATCATGTA
6671862 CATGCAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (26 bp):
TATATTTTTCATATATATCATGTATA
Found at i:6671871 original size:27 final size:25
Alignment explanation
Indices: 6671811--6671883 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 25
6671801 AATATTCTAT
*
6671811 TATATTTTTCATATTATATCATGTATA
1 TATATTTTTCATA-TAT-TCATGTACA
6671838 TATATTTTTCATATATGTCATGTACA
1 TATATTTTTCATATAT-TCATGTACA
6671864 TGCA-ATTTTTCA-ATATTCAT
1 T--ATATTTTTCATATATTCAT
6671884 TTTATACATA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.10
26 16 0.38
27 21 0.50
28 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.52
Consensus pattern (25 bp):
TATATTTTTCATATATTCATGTACA
Found at i:6671872 original size:26 final size:27
Alignment explanation
Indices: 6671816--6671872 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
6671806 TCTATTATAT
* * *
6671816 TTTTCATATTATATCATGTATATATAT
1 TTTTCATATTATATCATGTACATACAA
* *
6671843 TTTTCATA-TATGTCATGTACATGCAA
1 TTTTCATATTATATCATGTACATACAA
6671869 TTTT
1 TTTT
6671873 TCAATATTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.53
Consensus pattern (27 bp):
TTTTCATATTATATCATGTACATACAA
Found at i:6672853 original size:27 final size:27
Alignment explanation
Indices: 6672794--6672887 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 27
6672784 ACTATATTAC
* *
6672794 ATTTTTTACATATTATCTTATGTATAT
1 ATTTTTTACATACTATATTATGTATAT
*
6672821 ATTTTTTTA-ATAACTATATTATGTATGT
1 A-TTTTTTACAT-ACTATATTATGTATAT
** * *
6672849 A-TTTTTA-ACGCTATATTATATACAT
1 ATTTTTTACATACTATATTATGTATAT
6672874 A-TTTTTA-ATACTAT
1 ATTTTTTACATACTAT
6672888 GTATATACCT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
25 24 0.44
26 7 0.13
27 3 0.05
28 21 0.38
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.55
Consensus pattern (27 bp):
ATTTTTTACATACTATATTATGTATAT
Found at i:6672887 original size:25 final size:25
Alignment explanation
Indices: 6672824--6672895 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
6672814 TGTATATATT
* **
6672824 TTTTTAATAACTATATTATGTATGTA
1 TTTTTAAT-ACTATATTATATACATA
**
6672850 TTTTTAACGCTATATTATATACATA
1 TTTTTAATACTATATTATATACATA
*
6672875 TTTTTAATACTAT-GTATATAC
1 TTTTTAATACTATATTATATAC
6672896 CTTTTATTCC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
24 7 0.18
25 24 0.63
26 7 0.18
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
TTTTTAATACTATATTATATACATA
Found at i:6681861 original size:26 final size:28
Alignment explanation
Indices: 6681832--6681899 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
6681822 TATGTATGAT
6681832 AAAAATAATAATATACATA-ATATA-TA
1 AAAAATAATAATATACATACATATACTA
*
6681858 AAAAATACA-AATAATATATACATATACTA
1 AAAAATA-ATAAT-ATACATACATATACTA
*
6681887 AAAAATGATAATA
1 AAAAATAATAATA
6681900 ATAAAAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
26 10 0.29
27 7 0.20
28 7 0.20
29 11 0.31
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (28 bp):
AAAAATAATAATATACATACATATACTA
Found at i:6681973 original size:3 final size:3
Alignment explanation
Indices: 6681954--6681995 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
6681944 TCTATGTACC
*
6681954 AAT AAT ATT AAT AAAT AAT AGAT AAT AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA
6681996 CGATAATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6682000 original size:23 final size:21
Alignment explanation
Indices: 6681967--6682009 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
6681957 AATATTAATA
6681967 AATAATAGATAATAATAAAAT
1 AATAATAGATAATAATAAAAT
*
6681988 AATAATAACGATAATAGTAAAA
1 AATAAT-A-GATAATAATAAAA
6682010 ATACAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
AATAATAGATAATAATAAAAT
Found at i:6682248 original size:24 final size:23
Alignment explanation
Indices: 6682200--6682248 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
6682190 TAAGTATGGT
6682200 ATAATATAACAATGATAATAATA
1 ATAATATAACAATGATAATAATA
6682223 ATAA-ATAACAATGAT-ATAATA
1 ATAATATAACAATGATAATAATA
6682244 ATAAT
1 ATAAT
6682249 CTAGTGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.40
22 11 0.44
23 4 0.16
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
ATAATATAACAATGATAATAATA
Found at i:6684322 original size:76 final size:73
Alignment explanation
Indices: 6684239--6684395 Score: 199
Period size: 74 Copynumber: 2.1 Consensus size: 73
6684229 AAAAGCAGAT
*
6684239 TTTGAAAATACCTC-GACATGTAACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 TTTGAAAATACCTCAG-C--GTAACCCGAGGCTCAACTCACATCTCACAATATGAGTTGA-TTTT
6684303 TGAAAAATAGAA
62 TGAAAAATAGAA
** * * *
6684315 TTTGAAAATACCTCAGCGTGCCCCTAGGTTCAACTCACATCTCGCAATATGAGTTGATTTTTGAA
1 TTTGAAAATACCTCAGCGTAACCCGAGGCTCAACTCACATCTCACAATATGAGTTGATTTTTGAA
*
6684380 AAATATAA
66 AAATAGAA
*
6684388 ATTGAAAA
1 TTTGAAAA
6684396 AACAGAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
73 22 0.31
74 34 0.47
76 15 0.21
77 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (73 bp):
TTTGAAAATACCTCAGCGTAACCCGAGGCTCAACTCACATCTCACAATATGAGTTGATTTTTGAA
AAATAGAA
Found at i:6684454 original size:90 final size:90
Alignment explanation
Indices: 6684305--6684661 Score: 399
Period size: 87 Copynumber: 4.0 Consensus size: 90
6684295 TGATTTTTTG
* ** * *
6684305 AAAAATAGAATTTGAAAATACCTCAGC--GTGCCCCTAGGTTCAACTCACATCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAGCATGTGAACCAAGGTTCAACTCACCTCTCGCAATATGAG
6684368 TTGATTTTTGAAAAATATAAATTGA
66 TTGATTTTTGAAAAATATAAATTGA
* * * * *
6684393 AAAAACAGAAATTGAAAATACCTCCGTATGTGAACCAAGGTTCAACTCACCTCTCGAAATATGAA
1 AAAAATAGAAATTGAAAATACCTCAGCATGTGAACCAAGGTTCAACTCACCTCTCGCAATATGAG
*
6684458 TTGATTTTTGAAAAATAGAAA-TG-
66 TTGATTTTTGAAAAATATAAATTGA
* * * *
6684481 -AAAATAGAATTTGAAAATACCTCAGCATGTGACCCGAGGTTCAACTCATCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAGCATGTGAACCAAGGTTCAACTCACCTCTCGCAATATGAG
* *
6684545 TTGATTTTTTAAAAATATGAATTGAA
66 TTGATTTTTGAAAAATATAAATTG-A
* * * *
6684571 AAAAATAGAAATTGAAAATATCTCAGC--GTG-TCCTGAGGCTCAACTTC-CCTCTCGCAATATG
1 AAAAATAGAAATTGAAAATACCTCAGCATGTGAACC-AAGGTTCAAC-TCACCTCTCGCAATATG
*** *
6684632 AGTTGATTTTTTTGAAACATAAATTGA
64 AGTTGATTTTTGAAAAATATAAATTGA
6684659 AAA
1 AAA
6684662 TACCTCGGCA
Statistics
Matches: 229, Mismatches: 32, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
87 73 0.32
88 31 0.14
89 49 0.21
90 52 0.23
91 24 0.10
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (90 bp):
AAAAATAGAAATTGAAAATACCTCAGCATGTGAACCAAGGTTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAAATATAAATTGA
Found at i:6684456 original size:164 final size:163
Alignment explanation
Indices: 6684223--6685028 Score: 622
Period size: 164 Copynumber: 5.0 Consensus size: 163
6684213 AGTCTATTTG
* **
6684223 AAATTG-AAAAGCAGATTTTGAAAATACCT-CGACATGT-AACCCGAGGCTCAACTCACCTCTC-
1 AAATTGAAAAAACAGAAATTGAAAATACCTCCG--ATGTGAA-CCGAGGCTCAACTCACCTCTCG
* *
6684284 ACAATATGAGTTGATTTTTTGAAAAATAGAATTTGAAAATACCTCAGC-GTGCCCCTAGGTTCAA
63 A-AATATGAGTTGATTTTTTGAAAAATAGAATTTGAAAATACCTCAGCAGTGACCCAAGGTTCAA
6684348 CTCACATCTCGCAATATGAGTTGATTTTTGAAAAATAT
127 CTCAC-TCTCGCAATATGAGTTGATTTTTGAAAAATAT
* *
6684386 AAATTGAAAAAACAGAAATTGAAAATACCTCCGTATGTGAACCAAGGTTCAACTCACCTCTCGAA
1 AAATTGAAAAAACAGAAATTGAAAATACCTCCG-ATGTGAACCGAGGCTCAACTCACCTCTCGAA
*
6684451 ATATGAATTGATTTTTGAAAAATAGAAATGAAAATAGAATTTGAAAATACCTCAGCATGTGACCC
65 ATATGAGTTGATTTTT------T-G--A--AAAATAGAATTTGAAAATACCTCAGCA-GTGACCC
* *
6684516 GAGGTTCAACTCATCTCTCGCAATATGAGTTGATTTTTTAAAAATAT
118 AAGGTTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAAATAT
* * * * * *
6684563 GAATTGAAAAAAATAGAAATTGAAAATATCTCAG-CGTG-TCCTGAGGCTCAACTTC-CCTCTCG
1 AAATTG-AAAAAACAGAAATTGAAAATACCTCCGATGTGAACC-GAGGCTCAAC-TCACCTCTCG
* * * *
6684625 CAATATGAGTTGATTTTTTTGAAACATA-AA-TTGAAAATACCTCGGCATGTGACCCAAGGCTCA
63 AAATATGAGTTGA-TTTTTTGAAAAATAGAATTTGAAAATACCTCAGCA-GTGACCCAAGGTTCA
* * * *
6684688 ATTCACCTCTAGCAATATGAATTGATTTTTGAAAAACAT
126 ACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAAATAT
* * * * * * *
6684727 AAATTGAAAATAC----CTTG---------GC-ATGTGACCCGAGGCTCAATTCACCTCTAGCAA
1 AAATTGAAAAAACAGAAATTGAAAATACCTCCGATGTGAACCGAGGCTCAACTCACCTCTCGAAA
* * *
6684778 TATGAATTGA-TTTTTGAAAGACATA-AA-TCGAAAATACCTCAGC-GTG-CCCTAAGGCTCAAC
66 TATGAGTTGATTTTTTGAAA-A-ATAGAATTTGAAAATACCTCAGCAGTGACCC-AAGGTTCAAC
* **
6684838 TCACCTCTCACAATATGAGTTGATTTTTGAAAAGCAT
128 TCA-CTCTCGCAATATGAGTTGATTTTTGAAAAATAT
* * * *
6684875 AAATTGAAAAAA-AGGGAAATCGAAAATACCTCAG-TGTG-TCCTAAGGCTCAACTCACCTCTCG
1 AAATTGAAAAAACA--GAAATTGAAAATACCTCCGATGTGAACC-GAGGCTCAACTCACCTCTCG
* * *
6684937 CAATATGAGTTGATATTTTTGAAAAATA-AA-TTGAAAATACCTCAGC-GTG-CCCTGAGGCTCA
63 AAATATGAGTTGAT-TTTTTGAAAAATAGAATTTGAAAATACCTCAGCAGTGACCC-AAGGTTCA
* * *
6684998 ATTCACCTCTAGCAATATGAATTGATTTTTG
126 ACTCA-CTCTCGCAATATGAGTTGATTTTTG
6685029 TTTGAAAACA
Statistics
Matches: 531, Mismatches: 65, Indels: 95
0.77 0.09 0.14
Matches are distributed among these distances:
147 3 0.01
148 65 0.12
149 2 0.00
150 49 0.09
151 2 0.00
153 2 0.00
159 3 0.01
161 2 0.00
162 94 0.18
163 12 0.02
164 136 0.26
165 7 0.01
166 5 0.01
168 1 0.00
170 2 0.00
171 2 0.00
173 1 0.00
175 28 0.05
176 29 0.05
177 61 0.11
178 25 0.05
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (163 bp):
AAATTGAAAAAACAGAAATTGAAAATACCTCCGATGTGAACCGAGGCTCAACTCACCTCTCGAAA
TATGAGTTGATTTTTTGAAAAATAGAATTTGAAAATACCTCAGCAGTGACCCAAGGTTCAACTCA
CTCTCGCAATATGAGTTGATTTTTGAAAAATAT
Found at i:6684544 original size:177 final size:163
Alignment explanation
Indices: 6684479--6685028 Score: 400
Period size: 162 Copynumber: 3.5 Consensus size: 163
6684469 AAAATAGAAA
*
6684479 TGAAAATAGAATTTGAAAATACCTCAGCATGTGACCCGAGGTTCAACTCATCTCTCGCAATATGA
1 TGAAAATAGAATTTGAAAATACCTCAGCATGTGACCCAAGGTTCAACTCA-CTCTCGCAATATGA
* * * * * *
6684544 GTTGATTTTTTAAAAATATGAATTGAAAAAAATAGAAATTGAAAATATCTCAGCGTGTCCTGAGG
65 GTTGATTTTTGAAAAATATAAATTG-AAAAAACAGAAATTGAAAATACCTCAGCGTGACCTAAGG
* *
6684609 CTCAACTTCCCTCTCGCAATATGAGTTGATTTTTT
129 CTCAACTTCCCTCTCGAAATATGAATTGATTTTTT
* * * *
6684644 TGAAACATA-AA-TTGAAAATACCTCGGCATGTGACCCAAGGCTCAATTCACCTCTAGCAATATG
1 TGAAA-ATAGAATTTGAAAATACCTCAGCATGTGACCCAAGGTTCAACTCA-CTCTCGCAATATG
* * * * * * **
6684707 AATTGATTTTTGAAAAACATAAATTGAAAATAC----CTTG--------GCA-TGTGACCCGAGG
64 AGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGACCTAAGG
* *
6684759 CTCAA-TTCACCTCTAGCAATATGAATTGA--TTTT
129 CTCAACTTC-CCTCTCGAAATATGAATTGATTTTTT
* * * * * *
6684792 TGAAAGACATAAATCGAAAATACCTCAGC--GTG-CCCTAAGGCTCAACTCACCTCTCACAATAT
1 TGAAA-ATAGAATTTGAAAATACCTCAGCATGTGACCC-AAGGTTCAACTCA-CTCTCGCAATAT
** * * *
6684854 GAGTTGATTTTTGAAAAGCATAAATTGAAAAAA-AGGGAAATCGAAAATACCTCAGTGTGTCCTA
63 GAGTTGATTTTTGAAAAATATAAATTGAAAAAACA--GAAATTGAAAATACCTCAGCGTGACCTA
* * *
6684918 AGGCTCAAC-TCACCTCTCGCAATATGAGTTGATATTTT
126 AGGCTCAACTTC-CCTCTCGAAATATGAATTGATTTTTT
* * * *
6684956 TGAAAAATA-AA-TTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAATTCACCTCTAGCAATAT
1 TG-AAAATAGAATTTGAAAATACCTCAGCATGTGACCC-AAGGTTCAACTCA-CTCTCGCAATAT
*
6685016 GAATTGATTTTTG
63 GAGTTGATTTTTG
6685029 TTTGAAAACA
Statistics
Matches: 317, Mismatches: 44, Indels: 51
0.77 0.11 0.12
Matches are distributed among these distances:
147 3 0.01
148 67 0.21
149 5 0.02
150 46 0.15
151 2 0.01
153 2 0.01
159 3 0.01
161 2 0.01
162 91 0.29
163 7 0.02
164 76 0.24
165 10 0.03
166 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (163 bp):
TGAAAATAGAATTTGAAAATACCTCAGCATGTGACCCAAGGTTCAACTCACTCTCGCAATATGAG
TTGATTTTTGAAAAATATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGACCTAAGGCT
CAACTTCCCTCTCGAAATATGAATTGATTTTTT
Found at i:6684588 original size:15 final size:16
Alignment explanation
Indices: 6684555--6684588 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6684545 TTGATTTTTT
6684555 AAAAATATGAATTGAA
1 AAAAATATGAATTGAA
6684571 AAAAATA-GAAATTGAA
1 AAAAATATG-AATTGAA
6684587 AA
1 AA
6684589 TATCTCAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAAAATATGAATTGAA
Found at i:6684697 original size:75 final size:74
Alignment explanation
Indices: 6684606--6684884 Score: 372
Period size: 75 Copynumber: 3.7 Consensus size: 74
6684596 GCGTGTCCTG
* *
6684606 AGGCTCAACTTC-CCTCTCGCAATATGAGTTGATTTTTTTG-AAACATAAATTGAAAATACCTCG
1 AGGCTCAA-TTCACCTCTAGCAATATGAATTGA--TTTTTGAAAACATAAATTGAAAATACCTCG
6684669 GCATGTGACCCA
63 GCATGTGACCCA
*
6684681 AGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAATACCTTGGC
1 AGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTG-AAAACATAAATTGAAAATACCTCGGC
*
6684746 ATGTGACCCG
65 ATGTGACCCA
* *
6684756 AGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTGAAAGACATAAATCGAAAATACCTCAGC
1 AGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTGAAA-ACATAAATTGAAAATACCTCGGC
6684821 --GTG-CCCTA
65 ATGTGACCC-A
* *
6684829 AGGCTCAACTCACCTCTCA-CAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAA
1 AGGCTCAATTCACCTCT-AGCAATATGAATTGATTTTTGAAAA-CATAAATTGAAAA
6684885 AAAGGGAAAT
Statistics
Matches: 186, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
72 4 0.02
73 58 0.31
74 7 0.04
75 117 0.63
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (74 bp):
AGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTGAAAACATAAATTGAAAATACCTCGGCA
TGTGACCCA
Found at i:6684864 original size:148 final size:148
Alignment explanation
Indices: 6684605--6684884 Score: 399
Period size: 148 Copynumber: 1.9 Consensus size: 148
6684595 AGCGTGTCCT
* * * *
6684605 GAGGCTCAACTTCCCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAATACCTCGG
1 GAGGCTCAACTTCCCTCTAGCAATATGAATTGA-TTTTTTGAAACATAAATCGAAAATACCTCAG
*
6684670 CATGTGACCCAAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAA
65 CA-GTGACCCAAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAA
6684735 AATACCTTGGCATGTGACCC
129 AATACCTTGGCATGTGACCC
6684755 GAGGCTCAA-TTCACCTCTAGCAATATGAATTGA-TTTTTGAAAGACATAAATCGAAAATACCTC
1 GAGGCTCAACTTC-CCTCTAGCAATATGAATTGATTTTTTG-AA-ACATAAATCGAAAATACCTC
* *
6684818 AGC-GTG-CCCTAAGGCTCAACTCACCTCTCA-CAATATGAGTTGATTTTTGAAAAGCATAAATT
63 AGCAGTGACCC-AAGGCTCAACTCACCTCT-AGCAATATGAATTGATTTTTGAAAAACATAAATT
6684880 GAAAA
126 GAAAA
6684885 AAAGGGAAAT
Statistics
Matches: 118, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
147 3 0.03
148 61 0.52
149 6 0.05
150 48 0.41
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (148 bp):
GAGGCTCAACTTCCCTCTAGCAATATGAATTGATTTTTTGAAACATAAATCGAAAATACCTCAGC
AGTGACCCAAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAA
TACCTTGGCATGTGACCC
Found at i:6684966 original size:89 final size:88
Alignment explanation
Indices: 6684802--6684973 Score: 283
Period size: 89 Copynumber: 1.9 Consensus size: 88
6684792 TGAAAGACAT
6684802 AAATCGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
1 AAATCGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
6684867 AAAAGCATAAATTGAAAAAAAGGG
66 AAAA-CATAAATTGAAAAAAAGGG
* * *
6684891 AAATCGAAAATACCTCAGTGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTT
1 AAATCGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCACAATATGAGTTG--ATTTT
6684956 TGAAAA-ATAAATTGAAAA
64 TGAAAACATAAATTGAAAA
6684974 TACCTCAGCG
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
89 67 0.86
91 11 0.14
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (88 bp):
AAATCGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
AAAACATAAATTGAAAAAAAGGG
Found at i:6685004 original size:73 final size:72
Alignment explanation
Indices: 6684891--6685027 Score: 202
Period size: 73 Copynumber: 1.9 Consensus size: 72
6684881 AAAAAAAGGG
* * * *
6684891 AAATCGAAAATACCTCAGTGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTT
1 AAATCGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTAGCAATATGAATTGAT-TTTT
6684956 TGAAAAAT
65 TGAAAAAT
* * *
6684964 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTT
1 AAATCGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTT
6685028 GTTTGAAAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
72 4 0.07
73 53 0.93
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (72 bp):
AAATCGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTT
GAAAAAT
Found at i:6685875 original size:45 final size:44
Alignment explanation
Indices: 6685816--6685925 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
6685806 TCATTAGAAG
* * *
6685816 GCCC-TTTCGGGTTTTCATCC-TAATTTTTTTGTGTTAATCAACAC
1 GCCCTTTTTGGGTTTTCA-CCTTAATTATCTT-TGTTAATCAACAC
* * ** *
6685860 GCCCTTTTTGGGTTTTTACCTTGATTATCTTTGTTCGTCAAGAC
1 GCCCTTTTTGGGTTTTCACCTTAATTATCTTTGTTAATCAACAC
6685904 GCCCTTTTTGGGTTTTCACCTT
1 GCCCTTTTTGGGTTTTCACCTT
6685926 GATCCCTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 37 0.67
45 18 0.33
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (44 bp):
GCCCTTTTTGGGTTTTCACCTTAATTATCTTTGTTAATCAACAC
Found at i:6697125 original size:23 final size:24
Alignment explanation
Indices: 6697090--6697143 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6697080 ATAAATAGTA
6697090 ATAGTATCAGAAA-TATAC-TATAT
1 ATAGTATCAGAAACTATACATA-AT
**
6697113 ATAGTATTTGAAATCTATACATAAT
1 ATAGTATCAGAAA-CTATACATAAT
6697138 ATAGTA
1 ATAGTA
6697144 AATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 11 0.42
25 13 0.50
26 2 0.08
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (24 bp):
ATAGTATCAGAAACTATACATAAT
Found at i:6697598 original size:29 final size:32
Alignment explanation
Indices: 6697544--6697623 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 32
6697534 TGTATGATAA
6697544 AAATAATAATATACATAATATATAAAAAATAC
1 AAATAATAATATACATAATATATAAAAAATAC
*
6697576 AAATAAT-ATATACAT-ATA-CTAAAAAATGA-
1 AAATAATAATATACATAATATATAAAAAAT-AC
*
6697605 TAATAATAA-ATACA-AATAT
1 AAATAATAATATACATAATAT
6697624 CAACACACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
29 22 0.52
30 5 0.12
31 8 0.19
32 7 0.17
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.29
Consensus pattern (32 bp):
AAATAATAATATACATAATATATAAAAAATAC
Found at i:6697683 original size:3 final size:3
Alignment explanation
Indices: 6697664--6697705 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
6697654 TCTATGTACC
*
6697664 AAT AAT ATT AAT AAAT AAT AGAT AAT AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA
6697706 CGATAATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6697710 original size:23 final size:21
Alignment explanation
Indices: 6697677--6697719 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
6697667 AATATTAATA
6697677 AATAATAGATAATAATAAAAT
1 AATAATAGATAATAATAAAAT
*
6697698 AATAATAACGATAATAGTAAAA
1 AATAAT-A-GATAATAATAAAA
6697720 ATACAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
AATAATAGATAATAATAAAAT
Found at i:6697943 original size:27 final size:24
Alignment explanation
Indices: 6697911--6697962 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
6697901 TAAGTATGGT
6697911 ATAATATAACAATGATAATAATAATA
1 ATAA-ATAACAATGAT-ATAATAATA
6697937 ATAAATAACAATGATATAATAATA
1 ATAAATAACAATGATATAATAATA
6697961 AT
1 AT
6697963 CTAGTGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 11 0.42
25 11 0.42
26 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAAATAACAATGATATAATAATA
Found at i:6698613 original size:23 final size:23
Alignment explanation
Indices: 6698568--6698614 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6698558 GGTATTTTTT
* *
6698568 TGTTCTTTTTTTTATTTTTTATA
1 TGTTCTTTTTTTTATTGTATATA
6698591 TGTTCTTTATTTTTA-TGTATATA
1 TGTTCTTT-TTTTTATTGTATATA
6698614 T
1 T
6698615 ACGTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.72
Consensus pattern (23 bp):
TGTTCTTTTTTTTATTGTATATA
Found at i:6703987 original size:2 final size:2
Alignment explanation
Indices: 6703982--6704014 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6703972 ACAATGAATA
6703982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6704015 ATAGGTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6715328 original size:17 final size:17
Alignment explanation
Indices: 6715308--6715344 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6715298 AACCTAACCC
*
6715308 AAAAAAAAA-ACAAAGA
1 AAAAAAAAAGAAAAAGA
6715324 AAAAAAAAAGAAAAAGA
1 AAAAAAAAAGAAAAAGA
6715341 AAAA
1 AAAA
6715345 CCTACCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:6715343 original size:11 final size:11
Alignment explanation
Indices: 6715311--6715344 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
6715301 CTAACCCAAA
6715311 AAAAAAACAAAG
1 AAAAAAA-AAAG
6715323 AAAAAAAAAAG
1 AAAAAAAAAAG
6715334 AAAAAGAAAAA
1 AAAAA-AAAAA
6715345 CCTACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:6715357 original size:14 final size:15
Alignment explanation
Indices: 6715340--6715372 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
6715330 AAAGAAAAAG
6715340 AAAAACCT-ACC-AA
1 AAAAACCTAACCTAA
6715353 AAAAACCTAACCTAA
1 AAAAACCTAACCTAA
6715368 AAAAA
1 AAAAA
6715373 AAAAAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 3 0.17
15 7 0.39
ACGTcount: A:0.67, C:0.24, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAACCTAACCTAA
Found at i:6715415 original size:45 final size:42
Alignment explanation
Indices: 6715307--6715416 Score: 105
Period size: 49 Copynumber: 2.4 Consensus size: 42
6715297 AAACCTAACC
*
6715307 CAAAAAAAA-AACAAAGAAAAAAAAAAGAAAAAGAAAAACCTAC
1 CAAAAAAAATAA-AAA-AAAAAAAAAAGAAAAAGAAAAACCTAA
*
6715350 CAAAAAAACCTAACCTAAAAAAAAAAAAGAAGAAAAAAGAAAAACCTAA
1 C-AAAAAA---AA--TAAAAAAAAAAAAAAAG-AAAAAGAAAAACCTAA
6715399 CAAAAAAAGATAAAAAAA
1 CAAAAAAA-ATAAAAAAA
6715417 CCTAGCCACC
Statistics
Matches: 56, Mismatches: 2, Indels: 17
0.75 0.03 0.23
Matches are distributed among these distances:
43 1 0.02
44 14 0.25
45 1 0.02
46 1 0.02
47 2 0.04
48 16 0.29
49 19 0.34
50 2 0.04
ACGTcount: A:0.77, C:0.12, G:0.06, T:0.05
Consensus pattern (42 bp):
CAAAAAAAATAAAAAAAAAAAAAAAGAAAAAGAAAAACCTAA
Found at i:6717958 original size:12 final size:12
Alignment explanation
Indices: 6717941--6717976 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
6717931 ATTCATTTGA
*
6717941 CATTCATGCATT
1 CATTCATACATT
6717953 CATTCATACATT
1 CATTCATACATT
6717965 CATTCATACATT
1 CATTCATACATT
6717977 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (12 bp):
CATTCATACATT
Found at i:6723300 original size:70 final size:69
Alignment explanation
Indices: 6723181--6723603 Score: 403
Period size: 71 Copynumber: 6.2 Consensus size: 69
6723171 GAGTTAAGCC
*
6723181 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
6723245 TGAGGTA
63 TGAGGTA
* * ** * *
6723252 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
6723317 AGGTA
65 AGGTA
* *
6723322 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
6723387 GAGGTA
64 GAGGTA
* * * ** * * *
6723393 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
6723449 ---A
66 GGTA
*** ** *
6723450 TTTTTGTTTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
6723511 GGTA
66 GGTA
* * *
6723515 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
6723580 TGAGGTA
63 TGAGGTA
*
6723587 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
6723604 CAATTTACGT
Statistics
Matches: 285, Mismatches: 44, Indels: 47
0.76 0.12 0.12
Matches are distributed among these distances:
53 31 0.11
57 9 0.03
60 2 0.01
62 2 0.01
65 5 0.02
66 4 0.01
69 34 0.12
70 64 0.22
71 70 0.25
72 64 0.22
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
GGTA
Found at i:6723489 original size:122 final size:124
Alignment explanation
Indices: 6723323--6723569 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 124
6723313 GTTGAGGTAT
6723323 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
6723388 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
6723444 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
6723509 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
6723569 T
1 T
6723570 CAGGTCACGC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
121 12 0.11
122 60 0.53
123 1 0.01
124 13 0.11
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:6723534 original size:263 final size:257
Alignment explanation
Indices: 6723014--6723606 Score: 1042
Period size: 263 Copynumber: 2.3 Consensus size: 257
6723004 TTTCAAGGAA
*
6723014 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
6723079 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
6723144 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
6723209 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
6723271 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
6723336 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
6723401 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
6723466 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
6723531 TTT
255 TTT
* * * * * *
6723534 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
6723599 GTTTTCAA
64 GTTTTCAA
6723607 TTTACGTTGT
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 120 0.38
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:6723565 original size:72 final size:71
Alignment explanation
Indices: 6723444--6723609 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
6723434 GAGTTAAGCC
** * *
6723444 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
6723508 TGAGGTA
65 TGAGGTA
*
6723515 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
6723580 TGAGGTA
65 TGAGGTA
* *
6723587 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
6723610 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:6723940 original size:74 final size:76
Alignment explanation
Indices: 6723834--6723978 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
6723824 TTTTTGCCTT
*
6723834 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
6723896 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
6723908 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
6723973 AATTTC
66 AATTTC
6723979 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:6723946 original size:165 final size:166
Alignment explanation
Indices: 6723674--6724153 Score: 691
Period size: 165 Copynumber: 2.9 Consensus size: 166
6723664 CTACTTTTTC
6723674 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * *
6723739 GTTGTTAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
6723804 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
6723839 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
6723904 GTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
6723969 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTC-------AAAA
*
6724012 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
6724077 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
6724138 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
6724154 CAAAAAATCA
Statistics
Matches: 286, Mismatches: 21, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
165 153 0.53
169 27 0.09
171 34 0.12
173 72 0.25
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
Found at i:6724333 original size:79 final size:76
Alignment explanation
Indices: 6724009--6724515 Score: 418
Period size: 72 Copynumber: 6.5 Consensus size: 76
6723999 TCAAAAAAAA
** *
6724009 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
6724072 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
6724083 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
6724144 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
6724155 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
6724219 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
6724231 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
6724296 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
6724310 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
6724374 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
6724387 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
* *
6724452 GCTATTTTCAATTTCTTTTTTTTTTC
55 GGTATTTTCAATTTC----TGTTTTC
6724478 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
6724516 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 56, Indels: 51
0.76 0.12 0.11
Matches are distributed among these distances:
72 64 0.18
73 31 0.09
75 22 0.06
76 4 0.01
77 61 0.18
78 3 0.01
79 63 0.18
80 6 0.02
81 29 0.08
88 56 0.16
89 1 0.00
90 2 0.01
91 5 0.01
92 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:6724387 original size:14 final size:13
Alignment explanation
Indices: 6724368--6724403 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
6724358 TGTCGAGGTA
6724368 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
6724381 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
6724395 TTTTCAAAA
1 TTTTCAAAA
6724404 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:6724533 original size:30 final size:30
Alignment explanation
Indices: 6724497--6724558 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
6724487 CAACTCATAT
6724497 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
6724527 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
6724557 TG
1 TG
6724559 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:6724659 original size:253 final size:246
Alignment explanation
Indices: 6724149--6724726 Score: 747
Period size: 253 Copynumber: 2.3 Consensus size: 246
6724139 TTCAATTTCT
* * *
6724149 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
6724214 TTCAATTTC--TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
66 TTCAATTTCTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
* *
6724277 CACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGT
131 CACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGT
* ** * * * **
6724342 TGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 TGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
6724394 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
6724458 TTCAATTTCTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-
66 TTCAATTTC-TTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAG
* * * * * * *
6724522 ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCG
127 A--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCG
*
6724585 AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
185 AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
*
6724647 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
6724711 TTCAATTTCTGTTTTT
66 TTCAATTTCTTTTTTT
6724727 AATGTCTGTT
Statistics
Matches: 289, Mismatches: 30, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
247 13 0.04
248 30 0.10
249 1 0.00
250 3 0.01
251 2 0.01
252 11 0.04
253 138 0.48
254 5 0.02
255 13 0.04
256 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (246 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
CACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTT
GAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:6725390 original size:16 final size:16
Alignment explanation
Indices: 6725371--6725405 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6725361 AACCTAACCC
*
6725371 AAAAAAAA-ACAAAGA
1 AAAAAAAAGAAAAAGA
6725386 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
6725402 AAAA
1 AAAA
6725406 CCTACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:6725417 original size:13 final size:15
Alignment explanation
Indices: 6725401--6725433 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6725391 AAAGAAAAAG
6725401 AAAAACCT-A-CCAA
1 AAAAACCTAACCCAA
6725414 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
6725429 AAAAA
1 AAAAA
6725434 AAAAAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 1 0.06
15 9 0.50
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:6725748 original size:19 final size:20
Alignment explanation
Indices: 6725726--6725772 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
6725716 TCTTTTTTCC
6725726 TCTTCTTTCGAATT-TTTTT
1 TCTTCTTTCGAATTGTTTTT
* * *
6725745 TCTTTTTTTGTATTGTTTTT
1 TCTTCTTTCGAATTGTTTTT
6725765 T-TTCTTTC
1 TCTTCTTTC
6725773 TTTATATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.74
Consensus pattern (20 bp):
TCTTCTTTCGAATTGTTTTT
Found at i:6727361 original size:79 final size:79
Alignment explanation
Indices: 6727265--6727423 Score: 291
Period size: 79 Copynumber: 2.0 Consensus size: 79
6727255 GATAACCATA
6727265 ATCATTTTACATATTTTAATAATATTTCTTTAAAGTAATTAGAACTAACGTAAATGAACATTATT
1 ATCATTTTACATATTTTAATAATATTTCTTTAAAGTAATTAGAACTAACGTAAATGAACATTATT
6727330 TACAAAGCTAGAAG
66 TACAAAGCTAGAAG
* * *
6727344 ATCATTTTACATGTTTTAATAGTATTTCTTTAATGTAATTAGAACTAACGTAAATGAACATTATT
1 ATCATTTTACATATTTTAATAATATTTCTTTAAAGTAATTAGAACTAACGTAAATGAACATTATT
6727409 TACAAAGCTAGAAG
66 TACAAAGCTAGAAG
6727423 A
1 A
6727424 CCTTTTGTTC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (79 bp):
ATCATTTTACATATTTTAATAATATTTCTTTAAAGTAATTAGAACTAACGTAAATGAACATTATT
TACAAAGCTAGAAG
Found at i:6732245 original size:11 final size:11
Alignment explanation
Indices: 6732229--6732254 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6732219 GATGATTGTT
6732229 TTTAATTTAAA
1 TTTAATTTAAA
6732240 TTTAATTTAAA
1 TTTAATTTAAA
6732251 TTTA
1 TTTA
6732255 CTAATCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:6733672 original size:17 final size:18
Alignment explanation
Indices: 6733647--6733683 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6733637 AAGCCAATCT
6733647 GGACGTGTGGG-CCACAC
1 GGACGTGTGGGCCCACAC
*
6733664 GGACTTGTGGGCCCACAC
1 GGACGTGTGGGCCCACAC
6733682 GG
1 GG
6733684 GCATGTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.16, C:0.30, G:0.41, T:0.14
Consensus pattern (18 bp):
GGACGTGTGGGCCCACAC
Found at i:6733690 original size:18 final size:17
Alignment explanation
Indices: 6733647--6733691 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
6733637 AAGCCAATCT
*
6733647 GGACGTGTGGGCCACAC
1 GGACATGTGGGCCACAC
*
6733664 GGACTTGTGGGCCCACAC
1 GGACATGTGGG-CCACAC
*
6733682 GGGCATGTGG
1 GGACATGTGG
6733692 ATTTTGGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.16, C:0.27, G:0.42, T:0.16
Consensus pattern (17 bp):
GGACATGTGGGCCACAC
Found at i:6736992 original size:15 final size:16
Alignment explanation
Indices: 6736972--6737009 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6736962 TAAGTCTAAG
*
6736972 AAAATAACAAT-AAAC
1 AAAATAAAAATAAAAC
6736987 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
6737003 -AAATAAA
1 AAAATAAA
6737010 CTTAATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:6738694 original size:3 final size:3
Alignment explanation
Indices: 6738672--6738727 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
6738662 AGTAAAAATT
6738672 ATA A-A ATA A-A ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6738717 ATA ATA ATA AT
1 ATA ATA ATA AT
6738728 GATAGGGCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6739654 original size:30 final size:31
Alignment explanation
Indices: 6739586--6739657 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
6739576 GCCCGTGTTT
*
6739586 TCAGGTCGTGTGGGTCACACGACCGTGTCGC
1 TCAGGCCGTGTGGGTCACACGACCGTGTCGC
* * * *
6739617 CCA-GCCGTGTGGGTCATACGGCTGTGTCG-
1 TCAGGCCGTGTGGGTCACACGACCGTGTCGC
6739646 TCAGGCCGTGTG
1 TCAGGCCGTGTG
6739658 ACTCACTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 2 0.06
30 30 0.88
31 2 0.06
ACGTcount: A:0.11, C:0.28, G:0.38, T:0.24
Consensus pattern (31 bp):
TCAGGCCGTGTGGGTCACACGACCGTGTCGC
Found at i:6742449 original size:23 final size:23
Alignment explanation
Indices: 6742422--6742472 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
6742412 CCTATGACTA
6742422 TTCTCGTTGAAATCAACTCATTC
1 TTCTCGTTGAAATCAACTCATTC
*
6742445 TTCTCGTTGGAATCAACTCATTC
1 TTCTCGTTGAAATCAACTCATTC
6742468 TTCTC
1 TTCTC
6742473 ATTAGCTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (23 bp):
TTCTCGTTGAAATCAACTCATTC
Found at i:6744620 original size:38 final size:38
Alignment explanation
Indices: 6744569--6744646 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
6744559 GAGGGATTCA
6744569 AATCGTTGTAGATGGTTTAAACCTATAGCCATAGAGGT
1 AATCGTTGTAGATGGTTTAAACCTATAGCCATAGAGGT
6744607 AATCGTTGTAGATGGTTTAAACCTATAGCCATAGAGGT
1 AATCGTTGTAGATGGTTTAAACCTATAGCCATAGAGGT
6744645 AA
1 AA
6744647 CCCATGGTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (38 bp):
AATCGTTGTAGATGGTTTAAACCTATAGCCATAGAGGT
Found at i:6745562 original size:14 final size:14
Alignment explanation
Indices: 6745543--6745573 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6745533 TGATTGTTTT
*
6745543 TAATCTAAATTTAC
1 TAATCTAAATTAAC
6745557 TAATCTAAATTAAC
1 TAATCTAAATTAAC
6745571 TAA
1 TAA
6745574 GAACGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:6745797 original size:31 final size:31
Alignment explanation
Indices: 6745754--6745815 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
6745744 GAGAGTAAGA
6745754 ATAACTGACTCTAGGTTGATTAATTGAAATC
1 ATAACTGACTCTAGGTTGATTAATTGAAATC
*
6745785 ATAATTGACTCTAGGTTGATTAATTGAAATC
1 ATAACTGACTCTAGGTTGATTAATTGAAATC
6745816 TCTTTCTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (31 bp):
ATAACTGACTCTAGGTTGATTAATTGAAATC
Found at i:6747556 original size:15 final size:15
Alignment explanation
Indices: 6747536--6747566 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6747526 AGACATGGGG
6747536 TGATTGTTCCTTGTC
1 TGATTGTTCCTTGTC
6747551 TGATTGTTCCTTGTC
1 TGATTGTTCCTTGTC
6747566 T
1 T
6747567 TTATCGGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.19, T:0.55
Consensus pattern (15 bp):
TGATTGTTCCTTGTC
Found at i:6750977 original size:14 final size:15
Alignment explanation
Indices: 6750958--6751013 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
6750948 AATCTTCAAT
6750958 GATATG-CAATCTTA
1 GATATGACAATCTTA
6750972 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
6750989 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
6751007 GATATGA
1 GATATGA
6751014 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:6751002 original size:35 final size:37
Alignment explanation
Indices: 6750956--6751034 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
6750946 ATAATCTTCA
6750956 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
6750992 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
6751028 A-GATATG
1 ATGATATG
6751035 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:6751034 original size:17 final size:19
Alignment explanation
Indices: 6750956--6751027 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
6750946 ATAATCTTCA
6750956 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6750975 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6750992 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
6751010 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
6751028 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:6751053 original size:22 final size:22
Alignment explanation
Indices: 6750956--6751050 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
6750946 ATAATCTTCA
6750956 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
6750975 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
6750992 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
6751010 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
6751032 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
6751051 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:6751340 original size:18 final size:17
Alignment explanation
Indices: 6751317--6751350 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6751307 GTTTCCCTGT
*
6751317 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
6751335 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
6751351 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Done.