Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 278 of 325
Found at i:89140450 original size:16 final size:16
Alignment explanation
Indices: 89140425--89140492 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
89140415 TGGTTCACTA
*
89140425 TAATGGAATAGAGCTG
1 TAATTGAATAGAGCTG
* *
89140441 TAATTAAATAGAGTTG
1 TAATTGAATAGAGCTG
* *
89140457 TAATTGAATACAACTG
1 TAATTGAATAGAGCTG
*
89140473 TAATGGAATAGAGCTG
1 TAATTGAATAGAGCTG
89140489 TAAT
1 TAAT
89140493 CAGTAATTCA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
TAATTGAATAGAGCTG
Found at i:89146144 original size:10 final size:10
Alignment explanation
Indices: 89146129--89146154 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
89146119 TTTCTTCTTC
89146129 TTTTTTTTTG
1 TTTTTTTTTG
89146139 TTTTTTTTTG
1 TTTTTTTTTG
89146149 TTTTTT
1 TTTTTT
89146155 GCAGTTAGGG
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:89152027 original size:35 final size:34
Alignment explanation
Indices: 89151946--89152033 Score: 88
Period size: 35 Copynumber: 2.6 Consensus size: 34
89151936 AGCTTGTCTG
* * *
89151946 ACTAGTGTTGGGCACACAACCGTCGGTTTATCCG
1 ACTAGAGTTGGGCACACAACCGTCGGTTCATCCA
* * *
89151980 ACTAGCGCTGGGCACA-ATCACCGTTGGTTCATCCA
1 ACTAGAGTTGGGCACACA--ACCGTCGGTTCATCCA
*
89152015 ACTAGAGTTGGGCTCACAA
1 ACTAGAGTTGGGCACACAA
89152034 TTATTATTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
33 1 0.02
34 15 0.35
35 26 0.60
36 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (34 bp):
ACTAGAGTTGGGCACACAACCGTCGGTTCATCCA
Found at i:89155197 original size:10 final size:10
Alignment explanation
Indices: 89155182--89155242 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
89155172 ATATTGTTAT
89155182 ACATGATATG
1 ACATGATATG
89155192 ACATGATATG
1 ACATGATATG
89155202 CACATGATATG
1 -ACATGATATG
** *
89155213 TTATGAGATG
1 ACATGATATG
89155223 CACATGATATG
1 -ACATGATATG
89155234 -CTATGATAT
1 AC-ATGATAT
89155243 ACTCATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:89155206 original size:21 final size:20
Alignment explanation
Indices: 89155182--89155258 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
89155172 ATATTGTTAT
89155182 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* *
89155203 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
*
89155224 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
89155245 TCATTATATGCATG
1 ACATGATATGCATG
89155259 GGTTGGGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:89163271 original size:25 final size:25
Alignment explanation
Indices: 89163243--89163291 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
89163233 TTATAATATG
* * *
89163243 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
89163268 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
89163292 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:89163343 original size:10 final size:10
Alignment explanation
Indices: 89163328--89163388 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
89163318 ATATTGTTAT
89163328 ACATGATATG
1 ACATGATATG
89163338 ACATGATATG
1 ACATGATATG
89163348 CACATGATATG
1 -ACATGATATG
** *
89163359 TTATGAGATG
1 ACATGATATG
89163369 CACATGATATG
1 -ACATGATATG
89163380 -CTATGATAT
1 AC-ATGATAT
89163389 ACTCATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:89163353 original size:21 final size:20
Alignment explanation
Indices: 89163328--89163404 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
89163318 ATATTGTTAT
89163328 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* *
89163349 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
*
89163370 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
89163391 TCATTATATGCATG
1 ACATGATATGCATG
89163405 GATTGGGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:89165734 original size:31 final size:30
Alignment explanation
Indices: 89165677--89165751 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 30
89165667 ATTATAATTA
89165677 ATTAATTTAAA-AATTAAGTTAAAAGATATTT
1 ATTAA-TTAAATAATTAAGTTAAAAGAT-TTT
*
89165708 ATTAATTAAATAATTATA-TTATAAGATTTT
1 ATTAATTAAATAATTA-AGTTAAAAGATTTT
* *
89165738 TTTACAATAAATAA
1 ATTA-ATTAAATAA
89165752 ATAAAAGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 11 0.29
31 26 0.68
32 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (30 bp):
ATTAATTAAATAATTAAGTTAAAAGATTTT
Found at i:89165938 original size:22 final size:22
Alignment explanation
Indices: 89165896--89165954 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 22
89165886 TAAATGAAAT
* *
89165896 AAAAGAAACAAAAGTATAAAAC
1 AAAAGAAACAAAAGCAAAAAAC
*
89165918 AAAAGAAAC-AAAGC-CAAAA-
1 AAAAGAAACAAAAGCAAAAAAC
89165937 AAAAGAAA-AAAAG-AAAAA
1 AAAAGAAACAAAAGCAAAAA
89165955 GAAAACATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 15 0.47
20 4 0.12
21 4 0.12
22 9 0.28
ACGTcount: A:0.78, C:0.08, G:0.10, T:0.03
Consensus pattern (22 bp):
AAAAGAAACAAAAGCAAAAAAC
Found at i:89167290 original size:24 final size:24
Alignment explanation
Indices: 89167263--89167311 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
89167253 AGATATAAAA
89167263 TGAATTAGTATAATATCTATATTT
1 TGAATTAGTATAATATCTATATTT
89167287 TGAATTAGTATAATATCTATATTT
1 TGAATTAGTATAATATCTATATTT
89167311 T
1 T
89167312 ATTATTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (24 bp):
TGAATTAGTATAATATCTATATTT
Found at i:89169159 original size:43 final size:43
Alignment explanation
Indices: 89169023--89169192 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
89169013 ATAAAGCTCG
* * *
89169023 TACAATGCCAA-ATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * * * * * *
89169064 TATCGATGCCATTGTCCCAGATAGGGTCTTACACGAAATCGATTAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATC-A-CAA
* *
89169110 T--GATGCCAATGTCCCAGACATGGTCATACATGTAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * *
89169151 TACAATGCCAATGTCTCAAACATGGTCTTACATATAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
89169193 TCTTGGTAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 5 0.05
42 8 0.08
43 86 0.84
44 1 0.01
46 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:89172155 original size:446 final size:446
Alignment explanation
Indices: 89171321--89172209 Score: 1467
Period size: 446 Copynumber: 2.0 Consensus size: 446
89171311 GTACTCCATG
89171321 TAATCTCAAAACCTCGGAGATATACAACTCAGCTAACTATTCAAGCAAATAGTCCATTCGTACTA
1 TAATCTCAAAACCTCGGAGATATACAACTCAGCTAACTATTCAAGCAAATAGTCCATTCGTACTA
* * *
89171386 GAACGAAACGAGATATTTTTTCAATCTGTCAACTATAACCTAGATTGCATCTTTCTTTTTTAGAG
66 GAACGAAACGAGATATTTTGTCAATCTGTCAACTATAACCCAGATCGCATCTTTCTTTTTTAGAG
* *
89171451 ATAGGGGCAATCCTGACACAAAATCCATAGTCACTCTACCCCATTTTCACTCGGGAATCATGATA
131 ATAGGGGCAATCCTGACACAAAATCCATAGTCACTCAACCCCATTTCCACTCGGGAATCATGATA
*
89171516 GGCTGTAATAAACTTGAAGGTACTTGATGCTCAGCTTTAACTTGTTGACAAATCAAACATTTCGA
196 GGCTGTAATAAACTTGAAGGTACTTGATGC-CAGCTTTAACTTGCTGACAAATCAAACATTTCGA
89171581 AACAAATTCTGAAATATCACGTTTCATGCCATGCCACCAATAAAGCTGTTTCAAATAATTATACA
260 AACAAATTCTGAAATATCACGTTTCATGCCATGCCACCAATAAAGCTGTTTCAAATAATTATACA
* * * *
89171646 TTTTCGTGTTTCCCGGATGTACTGATAAATGACTACTACGTGCTTCATTCAAAATCATCTGAATC
325 TTCTCGTGTTCCCCAGATGTACTGATAAACGACTACTACGTGCTTCATTCAAAATCATCTGAATC
*
89171711 AACTATGCATTTCTTGAAACACATATTCAGCCTCGGAATCTTAAACAGTCATCCGTA
390 AACTATGCATTTCTTGAAACACATATTCAGCCTCAGAATCTTAAACAGTCATCCGTA
* * * * **
89171768 TAATCTCAAAACCTCGTAGATATACAACTTAGCTAACTTTTCAAGCGAATAGTCTGTTCGTACTA
1 TAATCTCAAAACCTCGGAGATATACAACTCAGCTAACTATTCAAGCAAATAGTCCATTCGTACTA
* * *
89171833 GAACGAAATGAGCTAATTTTGTCAATCTGTCAACTATAACCCAGATCGCATCTTTCTTTTTTGGA
66 GAACGAAACGAGAT-ATTTTGTCAATCTGTCAACTATAACCCAGATCGCATCTTTCTTTTTTAGA
*
89171898 GATAGGGGCAAT-GTCGACACAAAATCCATAGTCACTCAACCCCATTTCCACTCGGGAATCATGA
130 GATAGGGGCAATCCT-GACACAAAATCCATAGTCACTCAACCCCATTTCCACTCGGGAATCATGA
*
89171962 TAGGCTGTAATAAACTTGAAGGTACTTGATG-CAGTTTTAACTTGCTGACAAATCAAACATTTCG
194 TAGGCTGTAATAAACTTGAAGGTACTTGATGCCAGCTTTAACTTGCTGACAAATCAAACATTTCG
*
89172026 AAACAAATTCTGAAATATCATGTTTCATGCCATGCCACCAATAAAGCTGTTTCAAATAATTATAC
259 AAACAAATTCTGAAATATCACGTTTCATGCCATGCCACCAATAAAGCTGTTTCAAATAATTATAC
* *
89172091 ATTCTCGTGTTCCCCAGATGTACTGATAAACGACTACTATGTGCTTTATTCAAAATCATCTGAAT
324 ATTCTCGTGTTCCCCAGATGTACTGATAAACGACTACTACGTGCTTCATTCAAAATCATCTGAAT
* * * * *
89172156 CAATTCTGCATTTTTTGGAACACATATTCGGCCTCAGAATCTTAAACAGTCATC
389 CAACTATGCATTTCTTGAAACACATATTCAGCCTCAGAATCTTAAACAGTCATC
89172210 GGAATTAACT
Statistics
Matches: 410, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
446 202 0.49
447 72 0.18
448 136 0.33
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (446 bp):
TAATCTCAAAACCTCGGAGATATACAACTCAGCTAACTATTCAAGCAAATAGTCCATTCGTACTA
GAACGAAACGAGATATTTTGTCAATCTGTCAACTATAACCCAGATCGCATCTTTCTTTTTTAGAG
ATAGGGGCAATCCTGACACAAAATCCATAGTCACTCAACCCCATTTCCACTCGGGAATCATGATA
GGCTGTAATAAACTTGAAGGTACTTGATGCCAGCTTTAACTTGCTGACAAATCAAACATTTCGAA
ACAAATTCTGAAATATCACGTTTCATGCCATGCCACCAATAAAGCTGTTTCAAATAATTATACAT
TCTCGTGTTCCCCAGATGTACTGATAAACGACTACTACGTGCTTCATTCAAAATCATCTGAATCA
ACTATGCATTTCTTGAAACACATATTCAGCCTCAGAATCTTAAACAGTCATCCGTA
Found at i:89181543 original size:146 final size:149
Alignment explanation
Indices: 89181358--89181626 Score: 377
Period size: 148 Copynumber: 1.8 Consensus size: 149
89181348 TTTTTTAAAA
* **
89181358 AAAATAAAAATATGTTTTTTTTGTCATTTTAAAGGAAAGTTTAAA-TTTTT-AAAT-TTTTTTTG
1 AAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTTAAAATAACTTTTTG
* *
89181420 ATTTTTTTAACTATTTCGAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTAAAAA
66 ATTTTTTCAACTATTTCAAAATAAAAT-TTTAATTTTTAAGAAAAATAGTGATTTTTTTTAAAAA
89181485 AAGATAAAGTTTAGATTTTT
130 AAGATAAAGTTTAGATTTTT
* *
89181505 AAAAT-AAAATATG-TTTTTTAGTCATTTTTATGGAAAAGTTTAAATTTTTTAAAATAACTTTTT
1 AAAATAAAAATATGTTTTTTTAGTCATTTTAAAGG-AAAGTTTAAATTTTTTAAAATAACTTTTT
* * ** *
89181568 GATTTTTTCAATTATTTCAAAATAAAGTTTTGGTTTTTAAGAAAAGTAGTGATTTTTTT
65 GATTTTTTCAACTATTTCAAAATAAAATTTTAATTTTTAAGAAAAATAGTGATTTTTTT
89181627 AAAGAAATCT
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
145 17 0.16
146 18 0.17
147 10 0.09
148 32 0.30
149 29 0.27
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (149 bp):
AAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTTAAAATAACTTTTTG
ATTTTTTCAACTATTTCAAAATAAAATTTTAATTTTTAAGAAAAATAGTGATTTTTTTTAAAAAA
AGATAAAGTTTAGATTTTT
Found at i:89181599 original size:31 final size:30
Alignment explanation
Indices: 89181547--89181605 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
89181537 GAAAAGTTTA
* **
89181547 AATTTTTTAAAATAACTTTTTGATTTTTTC
1 AATTTTTCAAAATAAAGTTTTGATTTTTTC
*
89181577 AATTATTTCAAAATAAAGTTTTGGTTTTT
1 AATT-TTTCAAAATAAAGTTTTGATTTTT
89181606 AAGAAAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (30 bp):
AATTTTTCAAAATAAAGTTTTGATTTTTTC
Found at i:89181766 original size:12 final size:12
Alignment explanation
Indices: 89181749--89181773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89181739 TGGCCAGCAT
89181749 AGAAAGAGGAAG
1 AGAAAGAGGAAG
89181761 AGAAAGAGGAAG
1 AGAAAGAGGAAG
89181773 A
1 A
89181774 TGTTTTATTT
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:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AGAAAGAGGAAG
Found at i:89182256 original size:16 final size:16
Alignment explanation
Indices: 89182224--89182258 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
89182214 TTATTTCGTC
89182224 TTTATTTATTTTCATG
1 TTTATTTATTTTCATG
89182240 TTTATTTATATTT-ATG
1 TTTATTTAT-TTTCATG
89182256 TTT
1 TTT
89182259 TTTTGCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTATTTATTTTCATG
Found at i:89191688 original size:15 final size:15
Alignment explanation
Indices: 89191658--89191707 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
89191648 CAAAGATAAC
*
89191658 AAGAAAACCA-AATA
1 AAGAAATCCAGAATA
89191672 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
89191687 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
89191702 AAGAAA
1 AAGAAA
89191708 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.62, C:0.12, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:89191716 original size:15 final size:15
Alignment explanation
Indices: 89191658--89191716 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
89191648 CAAAGATAAC
*
89191658 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
89191672 AAGAAATCC-AGAATA
1 AAGAAATCCAAG-ATA
* *
89191687 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
89191702 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
89191717 CGATACTATG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
13 1 0.03
14 8 0.22
15 26 0.72
16 1 0.03
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:89195122 original size:45 final size:45
Alignment explanation
Indices: 89195070--89195160 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
89195060 AATAAATTTA
89195070 AAGCAAGGTTGGTAGCCAAAAGG-TTTACACAAAAATAATGTATTG
1 AAGCAAGGTTGGTAGCC-AAAGGTTTTACACAAAAATAATGTATTG
89195115 AAGCAAGGTTGGTAGCCAAAGGTTTTACACAAAAATAATGTATTG
1 AAGCAAGGTTGGTAGCCAAAGGTTTTACACAAAAATAATGTATTG
89195160 A
1 A
89195161 TTACTTTGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 5 0.11
45 40 0.89
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (45 bp):
AAGCAAGGTTGGTAGCCAAAGGTTTTACACAAAAATAATGTATTG
Found at i:89205394 original size:3 final size:3
Alignment explanation
Indices: 89205386--89205423 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
89205376 ATAAGCTGCA
89205386 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
89205424 ACATCATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:89205924 original size:29 final size:31
Alignment explanation
Indices: 89205892--89205960 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
89205882 TATGTACTTT
* *
89205892 AATTAAGTTATTTTA-CTTTTATTTTTAGAA
1 AATTAAGTTATTTTATCTTTTAATTTTAAAA
* *
89205922 ATTTAA-TT-TTTTATTTTTTAATTTTAAAA
1 AATTAAGTTATTTTATCTTTTAATTTTAAAA
89205951 AATTAAGTTA
1 AATTAAGTTA
89205961 AATTGTTAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 5 0.16
29 19 0.61
30 7 0.23
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (31 bp):
AATTAAGTTATTTTATCTTTTAATTTTAAAA
Found at i:89210962 original size:19 final size:20
Alignment explanation
Indices: 89210916--89210962 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
89210906 AAGTGTGCAT
*
89210916 AATAAAAATAAAATGTATAA
1 AATAAAAATAAAATGAATAA
*
89210936 AA-ACAAATAAAAT-AATAA
1 AATAAAAATAAAATGAATAA
89210954 AATAAAAAT
1 AATAAAAAT
89210963 TTTATTAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 6 0.26
19 15 0.65
20 2 0.09
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (20 bp):
AATAAAAATAAAATGAATAA
Found at i:89214959 original size:17 final size:17
Alignment explanation
Indices: 89214937--89214982 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
89214927 GATATAAGTA
89214937 GGTTGAAATAGTTAAAT
1 GGTTGAAATAGTTAAAT
89214954 GGTTGAAATAGTTAAAT
1 GGTTGAAATAGTTAAAT
89214971 GGTTGAAATAGT
1 GGTTGAAATAGT
89214983 GGGAATGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (17 bp):
GGTTGAAATAGTTAAAT
Found at i:89214970 original size:8 final size:9
Alignment explanation
Indices: 89214938--89214982 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
89214928 ATATAAGTAG
89214938 GTTGAAATA
1 GTTGAAATA
*
89214947 GTT-AAATG
1 GTTGAAATA
89214955 GTTGAAATA
1 GTTGAAATA
*
89214964 GTT-AAATG
1 GTTGAAATA
89214972 GTTGAAATA
1 GTTGAAATA
89214981 GT
1 GT
89214983 GGGAATGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 14 0.47
9 16 0.53
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (9 bp):
GTTGAAATA
Found at i:89214979 original size:9 final size:9
Alignment explanation
Indices: 89214937--89214979 Score: 54
Period size: 8 Copynumber: 5.0 Consensus size: 9
89214927 GATATAAGTA
89214937 GGTTGAAAT
1 GGTTGAAAT
*
89214946 AGTT-AAAT
1 GGTTGAAAT
89214954 GGTTGAAAT
1 GGTTGAAAT
*
89214963 AGTT-AAAT
1 GGTTGAAAT
89214971 GGTTGAAAT
1 GGTTGAAAT
89214980 AGTGGGAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 14 0.50
9 14 0.50
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.35
Consensus pattern (9 bp):
GGTTGAAAT
Found at i:89245011 original size:2 final size:2
Alignment explanation
Indices: 89245004--89245034 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89244994 CAAACACATA
89245004 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 A
89245035 CATTCGAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89248737 original size:17 final size:18
Alignment explanation
Indices: 89248715--89248749 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
89248705 ATTGGTCCTA
89248715 AAAATAA-TATCGATACT
1 AAAATAAGTATCGATACT
*
89248732 AAAATAAGTATTGATACT
1 AAAATAAGTATCGATACT
89248750 TTGTAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AAAATAAGTATCGATACT
Found at i:89249313 original size:29 final size:30
Alignment explanation
Indices: 89249270--89249339 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
89249260 GGTGTTATAT
* *
89249270 TTCATGTGTATAATTG-CACCAAATTAAAG
1 TTCATGTATAGAATTGACACCAAATTAAAG
**
89249299 TTCATGTATAGAATTGTACATTAAATTAAAG
1 TTCATGTATAGAATTG-ACACCAAATTAAAG
89249330 TTCATGTATA
1 TTCATGTATA
89249340 ATTTTAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 14 0.40
31 21 0.60
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (30 bp):
TTCATGTATAGAATTGACACCAAATTAAAG
Found at i:89250445 original size:2 final size:2
Alignment explanation
Indices: 89250438--89250463 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
89250428 AGTTGGTGCT
89250438 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
89250464 AATAAAGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89259093 original size:23 final size:22
Alignment explanation
Indices: 89259041--89259093 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
89259031 TCCACGTCTT
*
89259041 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
89259063 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
89259086 TTTCTTTT
1 TTTCTTTT
89259094 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:89269572 original size:5 final size:5
Alignment explanation
Indices: 89269562--89269591 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
89269552 GTCCTTTCGT
89269562 AATTA AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA AATTA
89269592 TTCAAGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:89272388 original size:22 final size:22
Alignment explanation
Indices: 89272363--89272410 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
89272353 TAATAATTTT
89272363 TTTATATATTTTTAT-ATTAATA
1 TTTATATATTTTTATAATTAA-A
*
89272385 TTTATATGTTTTTATAATTAAA
1 TTTATATATTTTTATAATTAAA
89272407 TTTA
1 TTTA
89272411 AATTAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTATATATTTTTATAATTAAA
Found at i:89273549 original size:20 final size:20
Alignment explanation
Indices: 89273524--89273561 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
89273514 CCTTACATCG
89273524 TTACATAATTGAAACTTTCA
1 TTACATAATTGAAACTTTCA
89273544 TTACATAATTGAAACTTT
1 TTACATAATTGAAACTTT
89273562 TCAGAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (20 bp):
TTACATAATTGAAACTTTCA
Found at i:89273631 original size:23 final size:23
Alignment explanation
Indices: 89273600--89273680 Score: 119
Period size: 23 Copynumber: 3.5 Consensus size: 23
89273590 ATACAAACCA
* *
89273600 CAGAGAATATTCACTATTCATGC
1 CAGAGAATATTTACTATTCACGC
*
89273623 CAGAAAATATTTACTATTCACGC
1 CAGAGAATATTTACTATTCACGC
89273646 CAGAGAATATTTA-TGATTCACGC
1 CAGAGAATATTTACT-ATTCACGC
89273669 CAGAGAATATTT
1 CAGAGAATATTT
89273681 CTTGTTCACT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 1 0.02
23 52 0.98
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (23 bp):
CAGAGAATATTTACTATTCACGC
Found at i:89276477 original size:21 final size:21
Alignment explanation
Indices: 89276451--89276498 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
89276441 TCAACTTAGA
89276451 GCGGAGGCAACAGCGAGGGAG
1 GCGGAGGCAACAGCGAGGGAG
*
89276472 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAACAGCGAGGGAG
89276493 GCGGAG
1 GCGGAG
89276499 CAGAACAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.56, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAACAGCGAGGGAG
Found at i:89276847 original size:43 final size:43
Alignment explanation
Indices: 89276800--89277126 Score: 383
Period size: 43 Copynumber: 7.5 Consensus size: 43
89276790 GCAAATCAGT
89276800 GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
1 GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
* * * *
89276843 GGCGTTTTTTATAAAAGCGCCG-TTAAAGTTCTTGGTCTATAGC
1 GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTAC-AGGTCTATAGC
*
89276886 GGCGTTTTTTTACAAAAGCGGCCGCTAAAAGTACAGGTCTATAGC
1 GGCG-TTTTTTAAAAAAGC-GCCGCTAAAAGTACAGGTCTATAGC
* * *
89276931 GGCGTTTTTTTACAAAAGTGCCACTAAAAGTACAGGTCTATAGC
1 GGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
*
89276975 GGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
1 GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
* * * * *
89277018 GGCGTTTTCTATAAAAGCGCCGCT-AAAGTTCTTGGTCTATAAC
1 GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTAC-AGGTCTATAGC
* * * * *
89277061 GGCGTTTTTATAAAAAA-CGCTGCTAAAGGTCCTGGTCTTTAGC
1 GGCGTTTTT-TAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
*
89277104 GGCGCTTTTATAAAAAA-CGCCGC
1 GGCG-TTTTTTAAAAAAGCGCCGC
89277127 GAACTTTTGT
Statistics
Matches: 250, Mismatches: 26, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
42 13 0.05
43 142 0.57
44 56 0.22
45 32 0.13
46 7 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
Found at i:89276976 original size:132 final size:130
Alignment explanation
Indices: 89276800--89277118 Score: 396
Period size: 132 Copynumber: 2.5 Consensus size: 130
89276790 GCAAATCAGT
*
89276800 GGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCC
1 GGCGTTTTTTTAAAAAAGCGCCACTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCC
* * * *
89276864 G-TTAAAGTTCTTGGTCTATAGCGGCGTTTTTTTACAAAAGCGGCCGCTAAAAGTAC-AGGTCTA
66 GCTAAAAGTAC-AGGTCTATAGCGGCG-TTTTCTACAAAAGC-GCCGCT-AAAGTACTAGGTCTA
*
89276927 TAGC
127 TAAC
* *
89276931 GGCGTTTTTTTACAAAAGTGCCACTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCC
1 GGCGTTTTTTTAAAAAAGCGCCACTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCC
* * *
89276996 GCTAAAAGTACAGGTCTATAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAAC
66 GCTAAAAGTACAGGTCTATAGCGGCGTTTTCTACAAAAGCGCCGCTAAAGTACTAGGTCTATAAC
* ** * * * * *
89277061 GGCGTTTTTATAAAAAA-CGCTGCTAAAGGTCCTGGTCTTTAGCGGCG-CTTTTATAAAA
1 GGCGTTTTTTTAAAAAAGCGCCACTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAA
89277119 AACGCCGCGA
Statistics
Matches: 164, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
128 10 0.06
129 29 0.18
130 30 0.18
131 16 0.10
132 72 0.44
133 7 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (130 bp):
GGCGTTTTTTTAAAAAAGCGCCACTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCC
GCTAAAAGTACAGGTCTATAGCGGCGTTTTCTACAAAAGCGCCGCTAAAGTACTAGGTCTATAAC
Found at i:89280207 original size:108 final size:108
Alignment explanation
Indices: 89280070--89280282 Score: 399
Period size: 108 Copynumber: 2.0 Consensus size: 108
89280060 TGTAATAAAC
* *
89280070 TAAGAATATTATATTCAGACATTCTGTCTATATTGCATTCATAAATTGTATTAGCATTGTATTTA
1 TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
*
89280135 TTCTGGAAAATGGGTTTTTTTTCTATATTAAGATCAGGTGCAG
66 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTGCAG
89280178 TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
1 TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
89280243 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTG
66 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTG
89280283 TAGTGATTTT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (108 bp):
TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTGCAG
Found at i:89282758 original size:20 final size:20
Alignment explanation
Indices: 89282733--89282773 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
89282723 ATCCCTTACA
89282733 TCATTACATAATTAAAACTT
1 TCATTACATAATTAAAACTT
*
89282753 TCATTACATAATTGAAACTT
1 TCATTACATAATTAAAACTT
89282773 T
1 T
89282774 TCAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (20 bp):
TCATTACATAATTAAAACTT
Found at i:89282843 original size:23 final size:23
Alignment explanation
Indices: 89282815--89282905 Score: 64
Period size: 23 Copynumber: 4.0 Consensus size: 23
89282805 CAAACTACAG
89282815 AAAATATTCACTGTTCATGCCAA
1 AAAATATTCACTGTTCATGCCAA
* * * * *
89282838 AAAATATTTATTGTTAATGTCAG
1 AAAATATTCACTGTTCATGCCAA
* *
89282861 AGAATCTT-ACTGCTTC-TGCC-A
1 AAAATATTCACTG-TTCATGCCAA
*
89282882 AAGAT-TTCTACTGTTCATGCCAA
1 AAAATATTC-ACTGTTCATGCCAA
89282905 A
1 A
89282906 GAGAATAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
20 2 0.04
21 6 0.12
22 14 0.28
23 28 0.56
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (23 bp):
AAAATATTCACTGTTCATGCCAA
Found at i:89283725 original size:21 final size:21
Alignment explanation
Indices: 89283694--89283742 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
89283684 CATAACTTGA
* *
89283694 AAAATAAAAGAAGAGGAAAAAG
1 AAAA-AAAAGAAAAAGAAAAAG
89283716 AAAAAAAAGAAAAAGAAAAAG
1 AAAAAAAAGAAAAAGAAAAAG
*
89283737 AGAAAA
1 AAAAAA
89283743 GCTTCAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGAAAAAGAAAAAG
Found at i:89285757 original size:14 final size:13
Alignment explanation
Indices: 89285733--89285763 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
89285723 ATTTACAGTG
89285733 CTAACGTCACATA
1 CTAACGTCACATA
89285746 CTAACAGTCACATA
1 CTAAC-GTCACATA
89285760 CTAA
1 CTAA
89285764 TGATGTATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.42, C:0.29, G:0.06, T:0.23
Consensus pattern (13 bp):
CTAACGTCACATA
Found at i:89287706 original size:14 final size:13
Alignment explanation
Indices: 89287644--89287722 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 13
89287634 TCGCTATTAT
89287644 TTTTATGTT-TCTA
1 TTTTAT-TTATCTA
*
89287657 TTTATATTTAT-TT
1 TTT-TATTTATCTA
89287670 TTTTATTCTAATACTA
1 TTTTATT-T-AT-CTA
89287686 TTATTATTTATCTAA
1 TT-TTATTTATCT-A
89287701 TTTTATTTATCTA
1 TTTTATTTATCTA
89287714 TTTATATTT
1 TTT-TATTT
89287723 CTATTTATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
12 4 0.07
13 14 0.25
14 23 0.42
15 5 0.09
16 4 0.07
17 5 0.09
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.67
Consensus pattern (13 bp):
TTTTATTTATCTA
Found at i:89289123 original size:26 final size:26
Alignment explanation
Indices: 89289094--89289201 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
89289084 TGGTACAAAT
89289094 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89289120 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89289146 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89289172 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89289198 TGAT
1 TGAT
89289202 GGACATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89293839 original size:22 final size:21
Alignment explanation
Indices: 89293799--89293848 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
89293789 TAATGCCAAA
89293799 AAATAATTTTATAAATTTTAT
1 AAATAATTTTATAAATTTTAT
*
89293820 AAATAATTATTAT-GATTTT-T
1 AAATAATT-TTATAAATTTTAT
89293840 -AATAATTTT
1 AAATAATTTT
89293849 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 7 0.26
20 1 0.04
21 13 0.48
22 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AAATAATTTTATAAATTTTAT
Found at i:89295640 original size:12 final size:12
Alignment explanation
Indices: 89295623--89295656 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
89295613 ATTTATCGAG
89295623 TGTTCTTCTTCA
1 TGTTCTTCTTCA
89295635 TGTTCTTCTTCA
1 TGTTCTTCTTCA
89295647 TGTTCTTCTT
1 TGTTCTTCTT
89295657 TGTCAAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.24, G:0.09, T:0.62
Consensus pattern (12 bp):
TGTTCTTCTTCA
Found at i:89296210 original size:11 final size:10
Alignment explanation
Indices: 89296181--89296221 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
89296171 AAAACCTAAC
89296181 TTTGTAAAAA
1 TTTGTAAAAA
89296191 TTCT-TAAAAA
1 TT-TGTAAAAA
89296201 TTTGTGAAAAA
1 TTTGT-AAAAA
89296212 -TTGTAAAAA
1 TTTGTAAAAA
89296221 T
1 T
89296222 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.22
10 15 0.56
11 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (10 bp):
TTTGTAAAAA
Found at i:89296218 original size:20 final size:20
Alignment explanation
Indices: 89296181--89296221 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
89296171 AAAACCTAAC
*
89296181 TTTGTAAAAATTCTTAAAAA
1 TTTGTAAAAATTCGTAAAAA
89296201 TTTGTGAAAAATT-GTAAAAA
1 TTTGT-AAAAATTCGTAAAAA
89296221 T
1 T
89296222 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TTTGTAAAAATTCGTAAAAA
Found at i:89296472 original size:20 final size:20
Alignment explanation
Indices: 89296437--89296475 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89296427 TTCTTATAGA
**
89296437 ATATTGTTATTTAGAGAGAG
1 ATATTGTTATCGAGAGAGAG
89296457 ATATTGTTATCGAGAGAGA
1 ATATTGTTATCGAGAGAGA
89296476 TGTTTTGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (20 bp):
ATATTGTTATCGAGAGAGAG
Found at i:89296906 original size:11 final size:11
Alignment explanation
Indices: 89296878--89296906 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
89296868 TAACGCCAAA
89296878 AAATAATTTTT
1 AAATAATTTTT
89296889 AAA-AATTTTT
1 AAATAATTTTT
89296899 AAATAATT
1 AAATAATT
89296907 ATTATGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATAATTTTT
Found at i:89296922 original size:19 final size:21
Alignment explanation
Indices: 89296893--89296938 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
89296883 ATTTTTAAAA
89296893 ATTTTTAAATAATTA-TTATG
1 ATTTTTAAATAATTATTTATG
89296913 ATTTTT-AATAATTATTTATG
1 ATTTTTAAATAATTATTTATG
89296933 ATTTTT
1 ATTTTT
89296939 TAACATATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTTTTAAATAATTATTTATG
Found at i:89296951 original size:23 final size:20
Alignment explanation
Indices: 89296893--89296954 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
89296883 ATTTTTAAAA
*
89296893 ATTTTTAAATAATTA-TTATG
1 ATTTTT-AACAATTATTTATG
*
89296913 ATTTTTAATAATTATTTATG
1 ATTTTTAACAATTATTTATG
89296933 ATTTTTTAACATATCTATTTAT
1 A-TTTTTAACA-AT-TATTTAT
89296955 ATAACAACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 8 0.22
20 12 0.32
21 8 0.22
22 2 0.05
23 7 0.19
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTTTTAACAATTATTTATG
Found at i:89297778 original size:35 final size:35
Alignment explanation
Indices: 89297736--89297807 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
89297726 GAATTATTGA
* *
89297736 TGATGTCATAAAGTATTCGTGTTAAAATTTTAAGT
1 TGATGTCATAAAATATTCGTGCTAAAATTTTAAGT
* *
89297771 TGATGTCATAAAATATTCGTGCTAAGATTTTATGT
1 TGATGTCATAAAATATTCGTGCTAAAATTTTAAGT
89297806 TG
1 TG
89297808 GTATCAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (35 bp):
TGATGTCATAAAATATTCGTGCTAAAATTTTAAGT
Found at i:89301790 original size:86 final size:87
Alignment explanation
Indices: 89301628--89301792 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 87
89301618 TTTGCGGCAC
* * * *
89301628 TTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTCTCTCGCAAACGCCACTAAA
1 TTTTTTCACAAACGCCGCTAAAGAACATAACCTTTAACAGCGCTTCTCTCACAAACGCCACTAAA
* *
89301693 GACCATGACCTTTAGCGACACT
66 GAACATAACCTTTAGCGACACT
* * * * * *
89301715 TTTTTTTACAAACGCCGCTACAGAACA-AACCTTTAATAGCGCTTTTCTCACAAATGCCGCTAAA
1 TTTTTTCACAAACGCCGCTAAAGAACATAACCTTTAACAGCGCTTCTCTCACAAACGCCACTAAA
*
89301779 GAATATAACCTTTA
66 GAACATAACCTTTA
89301793 AAAATATATA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
86 41 0.63
87 24 0.37
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (87 bp):
TTTTTTCACAAACGCCGCTAAAGAACATAACCTTTAACAGCGCTTCTCTCACAAACGCCACTAAA
GAACATAACCTTTAGCGACACT
Found at i:89302438 original size:24 final size:24
Alignment explanation
Indices: 89302410--89302456 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
89302400 CTTCAACACC
89302410 TGCCTCTTCCTATGTTTCCCTTAT
1 TGCCTCTTCCTATGTTTCCCTTAT
*
89302434 TGCCTCTTCCTATGTTTCTCTTA
1 TGCCTCTTCCTATGTTTCCCTTA
89302457 CTAAGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.32, G:0.09, T:0.51
Consensus pattern (24 bp):
TGCCTCTTCCTATGTTTCCCTTAT
Found at i:89305566 original size:17 final size:18
Alignment explanation
Indices: 89305533--89305566 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89305523 TATCTCTTAA
89305533 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
89305551 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
89305567 AAAACAAATA
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:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:89305821 original size:20 final size:20
Alignment explanation
Indices: 89305771--89305821 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
89305761 TTTCCAACAA
89305771 TAAACCCTAAACCTAAATCC
1 TAAACCCTAAACCTAAATCC
* ** * *
89305791 CAAACTATAAACTTATATCC
1 TAAACCCTAAACCTAAATCC
89305811 TAAACCCTAAA
1 TAAACCCTAAA
89305822 TATATATATT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAACCCTAAACCTAAATCC
Found at i:89306004 original size:14 final size:14
Alignment explanation
Indices: 89305987--89306025 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
89305977 GTAAAACAAA
*
89305987 AAACCACAAACTCT
1 AAACCAAAAACTCT
*
89306001 AAACCATAAACTCT
1 AAACCAAAAACTCT
89306015 AAACCAAAAAC
1 AAACCAAAAAC
89306026 AATAAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:89306770 original size:41 final size:41
Alignment explanation
Indices: 89306725--89306832 Score: 182
Period size: 41 Copynumber: 2.6 Consensus size: 41
89306715 TTACTTTTTT
* *
89306725 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
89306766 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
89306807 GCGGCGTTTTTCCAAAA-CTGCCGCTA
1 GCGGCGTTTTTCCAAAAGC-GCCGCTA
89306833 TTGTTCAGTT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 1 0.02
41 63 0.98
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
Found at i:89306863 original size:41 final size:40
Alignment explanation
Indices: 89306805--89306886 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
89306795 CCTCGACCAA
** * *
89306805 TAGCGGCGTTTTTCC-AAAACTGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGACCAAAAAC-ACCGCTATTGCTCAGTTTT
89306845 TAGCGGCGTTTGGACCAAAAACACCGCTATTGCTCAGTTTT
1 TAGCGGCGTTT-GACCAAAAACACCGCTATTGCTCAGTTTT
89306886 T
1 T
89306887 TGTGGAGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 11 0.31
41 20 0.56
42 5 0.14
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (40 bp):
TAGCGGCGTTTGACCAAAAACACCGCTATTGCTCAGTTTT
Found at i:89311339 original size:79 final size:81
Alignment explanation
Indices: 89311171--89311355 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
89311161 GCTACTCGTT
*
89311171 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGATTTAACCCG
1 CAAA-GCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGATTTAACCCG
* *
89311235 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * **
89311252 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGAT-TTAACCCG
* *
89311314 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
89311331 CAAAGCCTTCGGGACGTAGCCCGGA
1 CAAAGCCTTCGGGACATAGCCCGGA
89311356 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 4 0.04
79 58 0.65
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGATTTAACCCGG
ATATAGTAACTAGCAC
Found at i:89311355 original size:40 final size:40
Alignment explanation
Indices: 89311152--89311355 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
89311142 CGAAATTTAA
** *
89311152 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
89311192 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGATTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89311232 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
89311271 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
89311311 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACGTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
89311351 CCGGA
1 CCGGA
89311356 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:89319367 original size:79 final size:81
Alignment explanation
Indices: 89319258--89319440 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
89319248 TACTCGTTCA
* *
89319258 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
89319321 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
89319338 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
89319401 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
89319417 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
89319441 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:89319440 original size:40 final size:40
Alignment explanation
Indices: 89319237--89319440 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
89319227 CGGAATTTAA
** *
89319237 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89319277 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89319317 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
89319356 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
89319396 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
89319436 CCGGA
1 CCGGA
89319441 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:89322847 original size:46 final size:46
Alignment explanation
Indices: 89322780--89323045 Score: 199
Period size: 46 Copynumber: 5.7 Consensus size: 46
89322770 TGTAACCCGC
*
89322780 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCAT
* * *
89322826 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGG--G-C-A-TTCGCAT
* * ***
89322876 --TTCA-CGAACTCGGACTCAACTCAACT-AGTTCGGATGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAA-TGAGTTCGGGCATTCGCAT
* *
89322919 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGG--G-C-A-TTCGCAT
* * * * * *
89322969 --TTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCAT
* *
89323012 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTC
89323046 AGATGCCTAG
Statistics
Matches: 169, Mismatches: 31, Indels: 40
0.70 0.13 0.17
Matches are distributed among these distances:
42 4 0.02
43 6 0.04
44 1 0.01
45 5 0.03
46 84 0.50
47 52 0.31
48 5 0.03
49 1 0.01
50 7 0.04
51 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCAT
Found at i:89322895 original size:93 final size:93
Alignment explanation
Indices: 89322787--89323095 Score: 528
Period size: 93 Copynumber: 3.3 Consensus size: 93
89322777 CGCCCATAAG
* * * *
89322787 CGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
89322852 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
89322880 CGAACTCGGACTCAACTCAACTAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
89322945 ATGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
89322973 CGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
89323038 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
89323066 CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
89323096 TGCCCAAATA
Statistics
Matches: 202, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 202 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:89322898 original size:47 final size:46
Alignment explanation
Indices: 89322834--89323099 Score: 288
Period size: 47 Copynumber: 5.7 Consensus size: 46
89322824 ATCCATAAGT
89322834 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
* * * * * * *
89322881 GAACTCGGACTCAACTCAACTAGTTCGGATG-TTCGCATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-C
*
89322927 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
* * * * * * * *
89322974 GAACTTGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-C
*
89323020 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TCAC
89323067 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
89323100 CAAATATCCG
Statistics
Matches: 175, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
45 4 0.02
46 67 0.38
47 100 0.57
48 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTCAC
Found at i:89324537 original size:294 final size:294
Alignment explanation
Indices: 89324079--89324664 Score: 1048
Period size: 294 Copynumber: 2.0 Consensus size: 294
89324069 ATCCATGTCC
89324079 AATTTTTATCCATAAACCTAAAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
1 AATTTTTATCCATAAACCTAAAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
*
89324144 AAGCAATTTCATACTAGAAACTTCAAGAATGCAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
66 AAGCAATTTCATACTAGAAACTTCAAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
* *
89324209 TTCAAATTAAGCACTTTATGCATCAAATTTCTTCACGAAATTTTCACACAATCATGTAATCATAT
131 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
*
89324274 CATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTC-GAATTTATGGTCCCGAAACCACT
196 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAG-ATTTATGGTCCCGAAACCACT
89324338 ATTCCGATTAGGCCCTAATTCGGGATATCACATGG
260 ATTCCGATTAGGCCCTAATTCGGGATATCACATGG
* * * *
89324373 AATTTTTGTCCATAAACTTAGAAATTGGTCAAATTGCTATTTAAGACCTCCTAATTAATATTTCA
1 AATTTTTATCCATAAACCTAAAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
*
89324438 AAGCAATTTCATACTAGAAACTTCTAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
66 AAGCAATTTCATACTAGAAACTTCAAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
89324503 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
131 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
* *
89324568 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTGTGGTCCCGAAACCACTG
196 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTATGGTCCCGAAACCACTA
*
89324633 TTCTGATTAGGCCCTAATTCGGGATATCACAT
261 TTCCGATTAGGCCCTAATTCGGGATATCACAT
89324665 CTACATTCTT
Statistics
Matches: 279, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
294 278 1.00
295 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (294 bp):
AATTTTTATCCATAAACCTAAAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
AAGCAATTTCATACTAGAAACTTCAAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTATGGTCCCGAAACCACTA
TTCCGATTAGGCCCTAATTCGGGATATCACATGG
Found at i:89324951 original size:51 final size:51
Alignment explanation
Indices: 89324891--89325043 Score: 252
Period size: 51 Copynumber: 3.0 Consensus size: 51
89324881 CTACGTGTAG
* * *
89324891 CAGCAACATTATCTAGTCCATCTGATGTTGCAAAGTCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
* *
89324942 CAGCAACATTATCCACTCTATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
*
89324993 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
89325044 TACCAGCAAC
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 94 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
Found at i:89325208 original size:33 final size:32
Alignment explanation
Indices: 89325152--89325264 Score: 100
Period size: 33 Copynumber: 3.4 Consensus size: 32
89325142 GTAGCAGACA
* * *
89325152 CACCCTCCCCATCAGCTTGTACCTCTCCTACAT
1 CACCCTCCTCATCAGATTCTACCTCT-CTACAT
* * *
89325185 CACCCTCCTCACCAGATTCTACCTTTTCTAGAT
1 CACCCTCCTCATCAGATTCTACC-TCTCTACAT
* * * *
89325218 CACCTTCATCATCAGATTCTACCCCTTTATCAT
1 CACCCTCCTCATCAGATTCTACCTCTCTA-CAT
*
89325251 CACCCTCCCCATCA
1 CACCCTCCTCATCA
89325265 ACTTCCACCC
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
32 3 0.05
33 57 0.92
34 2 0.03
ACGTcount: A:0.21, C:0.44, G:0.04, T:0.30
Consensus pattern (32 bp):
CACCCTCCTCATCAGATTCTACCTCTCTACAT
Found at i:89326301 original size:18 final size:16
Alignment explanation
Indices: 89326258--89326293 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
89326248 GAATGCTATC
* *
89326258 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
89326274 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
89326290 GATT
1 GATT
89326294 GTTAGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:89327853 original size:30 final size:31
Alignment explanation
Indices: 89327798--89327856 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
89327788 CACCCTTAAA
* * *
89327798 ATATTTGCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAGCCCCTCAAATTTTTC
89327829 ATATTTACACT-TTAGCCCCTCAAATTTT
1 ATATTTACACTATTAGCCCCTCAAATTTT
89327857 AAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCCTCAAATTTTTC
Found at i:89327864 original size:30 final size:31
Alignment explanation
Indices: 89327797--89327866 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
89327787 CCACCCTTAA
* * *
89327797 AATATTTGCACTATTAGTCCTTCAAATTTTT
1 AATATTTACACTATTAGCCCCTCAAATTTTT
*
89327828 CATATTTACACT-TTAGCCCCTCAAA-TTTT
1 AATATTTACACTATTAGCCCCTCAAATTTTT
89327857 AAGTATTTAC
1 AA-TATTTAC
89327867 TCTTGTGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (31 bp):
AATATTTACACTATTAGCCCCTCAAATTTTT
Found at i:89328324 original size:30 final size:30
Alignment explanation
Indices: 89328284--89328341 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
89328274 ACCTCTTTAC
*
89328284 TTTTCCCCAAAATTTTTACTC-CCTCCCCA
1 TTTTCCCCAAAACTTTTACTCTCCTCCCCA
*
89328313 TTTTCCCCCAAAACTTTTATTCTCCTCCC
1 TTTT-CCCCAAAACTTTTACTCTCCTCCC
89328342 ATCCCACCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 15 0.60
31 6 0.24
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCTCCTCCCCA
Found at i:89330001 original size:15 final size:15
Alignment explanation
Indices: 89329981--89330031 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
89329971 TAAGGTGAAA
89329981 GTAAAAATTTTTGGG
1 GTAAAAATTTTTGGG
* ***
89329996 GTAAAAA--TCTAAA
1 GTAAAAATTTTTGGG
89330009 GTAAAAATTTTTGGG
1 GTAAAAATTTTTGGG
89330024 GTAAAAAT
1 GTAAAAAT
89330032 ATAAAATATT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
13 9 0.35
15 17 0.65
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.33
Consensus pattern (15 bp):
GTAAAAATTTTTGGG
Found at i:89330011 original size:28 final size:28
Alignment explanation
Indices: 89329978--89330036 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
89329968 TTTTAAGGTG
*
89329978 AAAGTAAAAATTTTTGGGGTAAAAATCT
1 AAAGTAAAAATTTTTGGGGTAAAAATAT
89330006 AAAGTAAAAATTTTTGGGGTAAAAATAT
1 AAAGTAAAAATTTTTGGGGTAAAAATAT
89330034 AAA
1 AAA
89330037 ATATTATAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.31
Consensus pattern (28 bp):
AAAGTAAAAATTTTTGGGGTAAAAATAT
Found at i:89330074 original size:18 final size:18
Alignment explanation
Indices: 89330051--89330087 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
89330041 TATAGTTTAG
* *
89330051 TATTCGATTTATTTAAAT
1 TATTCGACTTATTCAAAT
89330069 TATTCGACTTATTCAAAT
1 TATTCGACTTATTCAAAT
89330087 T
1 T
89330088 TGAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.51
Consensus pattern (18 bp):
TATTCGACTTATTCAAAT
Found at i:89334764 original size:22 final size:22
Alignment explanation
Indices: 89334730--89334778 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
89334720 ATATCCAAAC
89334730 AATAATAACAAAAT-AGTAGCAA
1 AATAATAACAAAATGA-TAGCAA
*
89334752 CATAAT-ACTAAAATGATAGCAA
1 AATAATAAC-AAAATGATAGCAA
89334774 AATAA
1 AATAA
89334779 GGAGAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.09
22 20 0.87
23 1 0.04
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAATAACAAAATGATAGCAA
Found at i:89338059 original size:12 final size:14
Alignment explanation
Indices: 89338038--89338084 Score: 71
Period size: 15 Copynumber: 3.4 Consensus size: 14
89338028 AAATAACTCA
89338038 AAATAATAATA-AT
1 AAATAATAATATAT
89338051 AAA-AATAATATAT
1 AAATAATAATATAT
89338064 GAAATAATAATATAT
1 -AAATAATAATATAT
89338079 AAATAA
1 AAATAA
89338085 AATTTCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.23
13 5 0.16
14 9 0.29
15 10 0.32
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
AAATAATAATATAT
Found at i:89338101 original size:28 final size:27
Alignment explanation
Indices: 89338035--89338107 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
89338025 TCGAAATAAC
* *
89338035 TCAAAATAATAATAATAAAAATAATATA
1 TCAAAATAATAAT-ATATAAATAAAATA
* *
89338063 T-GAAATAATAATATATAAATAAAATT
1 TCAAAATAATAATATATAAATAAAATA
*
89338089 TCAAAATACATAATGTATA
1 TCAAAATA-ATAATATATA
89338108 TAAAAAAGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
26 12 0.32
27 15 0.41
28 10 0.27
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (27 bp):
TCAAAATAATAATATATAAATAAAATA
Found at i:89338313 original size:16 final size:16
Alignment explanation
Indices: 89338265--89338316 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
89338255 ACTTAGAAGA
*
89338265 AATATATATACACAA-
1 AATATATATACATAAT
*
89338280 AATA-ATATAAAATCAAT
1 AATATATAT-ACAT-AAT
89338297 AATATATATACATAAT
1 AATATATATACATAAT
89338313 AATA
1 AATA
89338317 AAAAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 4 0.13
15 6 0.20
16 9 0.30
17 7 0.23
18 4 0.13
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (16 bp):
AATATATATACATAAT
Found at i:89338323 original size:23 final size:20
Alignment explanation
Indices: 89338286--89338337 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
89338276 ACAAAATAAT
* *
89338286 ATAAAATCAATAATATATATAC
1 ATAAAAT-AA-AAAATATTTAC
89338308 ATAATAATAAAAAATATTTAC
1 ATAA-AATAAAAAATATTTAC
89338329 ATAAAATAA
1 ATAAAATAA
89338338 TAGGAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 6 0.22
23 3 0.11
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAATAAAAAATATTTAC
Found at i:89346615 original size:20 final size:20
Alignment explanation
Indices: 89346599--89346636 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89346589 CTTTAAATCT
*
89346599 GAACCCTAAACCCTAAACTC
1 GAACACTAAACCCTAAACTC
*
89346619 GAACACTAAACCCCAAAC
1 GAACACTAAACCCTAAAC
89346637 CTTTAAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.39, G:0.05, T:0.11
Consensus pattern (20 bp):
GAACACTAAACCCTAAACTC
Found at i:89353104 original size:22 final size:22
Alignment explanation
Indices: 89353076--89353118 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
89353066 ATTTTAGTAT
89353076 AAATTGATTTTTAAGACCTAAG
1 AAATTGATTTTTAAGACCTAAG
89353098 AAATTGATTTTTAAGACCTAA
1 AAATTGATTTTTAAGACCTAA
89353119 TTATGAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (22 bp):
AAATTGATTTTTAAGACCTAAG
Found at i:89355721 original size:33 final size:33
Alignment explanation
Indices: 89355684--89355858 Score: 106
Period size: 33 Copynumber: 5.2 Consensus size: 33
89355674 ATAATCCAGT
89355684 TATGGTCTCATCATCAGAATGCCATAGCTCAAC
1 TATGGTCTCATCATCAGAATGCCATAGCTCAAC
* * * *
89355717 TATGGTCTTACATGTAT-ACATTGCCAT-GGTCCAAC
1 TATGGTC-T-CAT-CATCAGAATGCCATAGCT-CAAC
* * * * * * * **
89355752 CATGGTCTTA-CGTCTATAGTGCCATAACCCAGT
1 TATGGTCTCATCATC-AGAATGCCATAGCTCAAC
* * * *
89355785 TATGGTCTAATCATCAAAATGTCATAGCCCAAC
1 TATGGTCTCATCATCAGAATGCCATAGCTCAAC
*
89355818 TATGGTCTCATCATCAGAATGTCATAGCGT-AAC
1 TATGGTCTCATCATCAGAATGCCATAGC-TCAAC
89355851 TATGGTCT
1 TATGGTCT
89355859 TACATATATA
Statistics
Matches: 106, Mismatches: 27, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
31 1 0.01
33 75 0.71
34 7 0.07
35 21 0.20
36 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (33 bp):
TATGGTCTCATCATCAGAATGCCATAGCTCAAC
Found at i:89355757 original size:35 final size:35
Alignment explanation
Indices: 89355617--89355762 Score: 97
Period size: 33 Copynumber: 4.3 Consensus size: 35
89355607 ATAACCAGCT
* * *
89355617 ATGGTCTTACATGTATACACTGTCATGGTCCAACC
1 ATGGTCTTACATGTATACAATGCCATAGTCCAACC
* * * * ***
89355652 ATGGTCTTAC--GTCTATAGTGCCATAATCCAGTT
1 ATGGTCTTACATGTATACAATGCCATAGTCCAACC
* * *
89355685 ATGGTC-T-CAT-CATCAGAATGCCATAG-CTCAACT
1 ATGGTCTTACATGTAT-ACAATGCCATAGTC-CAACC
* *
89355718 ATGGTCTTACATGTATACATTGCCATGGTCCAACC
1 ATGGTCTTACATGTATACAATGCCATAGTCCAACC
89355753 ATGGTCTTAC
1 ATGGTCTTAC
89355763 GTCTATAGTG
Statistics
Matches: 82, Mismatches: 21, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
31 1 0.01
32 3 0.04
33 38 0.46
34 1 0.01
35 36 0.44
36 3 0.04
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (35 bp):
ATGGTCTTACATGTATACAATGCCATAGTCCAACC
Found at i:89355758 original size:101 final size:101
Alignment explanation
Indices: 89355507--89355825 Score: 412
Period size: 101 Copynumber: 3.2 Consensus size: 101
89355497 CATATTGTGT
* * * ** ** * *
89355507 CATAGTTCAACTATGGTCTTACATG--TGCATTGCCATGGCCCTGCCATATTCTTCCGTTTATAG
1 CATAGCTCAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAG
* **
89355570 TGTCATAACCCAGTTATGGTCTTC-TCATCATCATGC
66 TGCCATAACCCAGTTATGGTC-TCATCATCAAAATGC
* * * *
89355606 CATAAC-CAGCTATGGTCTTACATGTATACACTGTCATGGTCCAACCATGGTCTTACGTCTATAG
1 CATAGCTCAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAG
* *
89355670 TGCCATAATCCAGTTATGGTCTCATCATCAGAATGC
66 TGCCATAACCCAGTTATGGTCTCATCATCAAAATGC
89355706 CATAGCTCAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAG
1 CATAGCTCAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAG
* *
89355771 TGCCATAACCCAGTTATGGTCTAATCATCAAAATGT
66 TGCCATAACCCAGTTATGGTCTCATCATCAAAATGC
*
89355807 CATAGCCCAACTATGGTCT
1 CATAGCTCAACTATGGTCT
89355826 CATCATCAGA
Statistics
Matches: 190, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
98 17 0.09
99 6 0.03
100 62 0.33
101 105 0.55
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (101 bp):
CATAGCTCAACTATGGTCTTACATGTATACATTGCCATGGTCCAACCATGGTCTTACGTCTATAG
TGCCATAACCCAGTTATGGTCTCATCATCAAAATGC
Found at i:89355877 original size:101 final size:100
Alignment explanation
Indices: 89355573--89355869 Score: 289
Period size: 101 Copynumber: 3.0 Consensus size: 100
89355563 TTTATAGTGT
** ** * * * *
89355573 CATAACCCAGTTATGGTCTTCTCATCATCATGCCATA-ACCAGCTATGGTCTTACATGTATACAC
1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA
* * * *
89355637 TGTCATGGTCCAACCATGGTCTTACGTCTATAGTGC
66 TGCCATGGT-CAACCATGGTCTTACATATATACTGC
* * * * * *
89355673 CATAATCCAGTTATGGTCTCATCATCAGAATGCCATAGCTCAACTATGGTCTTACATGTATACAT
1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA
* * *
89355738 TGCCATGGTCCAACCATGGTCTTACGTCTATAGTGC
66 TGCCATGGT-CAACCATGGTCTTACATATATACTGC
* *
89355774 CATAACCCAGTTATGGTCTAATCATCAAAATGTCATAGCCCAACTATGGTC-T-CAT-CATCAGA
1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCAT-ACA
* *
89355836 ATGTCATAGCGT-AACTATGGTCTTACATATATAC
65 ATGCCAT-G-GTCAACCATGGTCTTACATATATAC
89355870 ACTGCCATGG
Statistics
Matches: 170, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
98 2 0.01
99 28 0.16
100 34 0.20
101 106 0.62
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (100 bp):
CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA
TGCCATGGTCAACCATGGTCTTACATATATACTGC
Found at i:89356176 original size:6 final size:6
Alignment explanation
Indices: 89356165--89356192 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
89356155 TCAATTCATT
89356165 ATTTTC ATTTTC ATTTTC ATTTTC ATTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTT
89356193 ACACAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTC
Found at i:89360661 original size:27 final size:27
Alignment explanation
Indices: 89360631--89360688 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
89360621 GTTCGAAAGT
89360631 CTAACTAAATTTACAAGTCGTTTTATA
1 CTAACTAAATTTACAAGTCGTTTTATA
89360658 CTAACTAAATTTACAAGTCGTTTTATA
1 CTAACTAAATTTACAAGTCGTTTTATA
89360685 CTAA
1 CTAA
89360689 AAATAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40
Consensus pattern (27 bp):
CTAACTAAATTTACAAGTCGTTTTATA
Found at i:89361722 original size:27 final size:27
Alignment explanation
Indices: 89361679--89361740 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
89361669 AGTCCCAGCT
* **
89361679 GACTACCTTGTGCTTAGTGTCTTGGTG
1 GACTACCTCGTGCTTAGTGTCTCAGTG
*
89361706 GACTACCTCGTGTTTAGTGTCTCAGTG
1 GACTACCTCGTGCTTAGTGTCTCAGTG
89361733 GACTACCT
1 GACTACCT
89361741 ATGATGTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.37
Consensus pattern (27 bp):
GACTACCTCGTGCTTAGTGTCTCAGTG
Found at i:89361937 original size:45 final size:45
Alignment explanation
Indices: 89361870--89362006 Score: 163
Period size: 45 Copynumber: 3.1 Consensus size: 45
89361860 TATGGCGTAC
* *
89361870 TTTTAT-ATGAT-ATCATAGCATCTTTTAGCTATGGTCTTATTCAT
1 TTTTATCATGATGA-CATAACATCTTTCAGCTATGGTCTTATTCAT
* *
89361914 TTTTATCATGATGACATAACATCTTTCAACTATGGTCTT-TCTCAC
1 TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTAT-TCAT
* * * *
89361959 TTTTATCATGATGCCATAACATATTTCAGTTATGGTCTTACTCAT
1 TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTATTCAT
89362004 TTT
1 TTT
89362007 CGGTTTATAG
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
44 7 0.09
45 71 0.90
46 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.47
Consensus pattern (45 bp):
TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTATTCAT
Found at i:89376272 original size:22 final size:22
Alignment explanation
Indices: 89376246--89376293 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
89376236 AAAACATATC
89376246 AAATATATTTTTTAAAATATAA
1 AAATATATTTTTTAAAATATAA
89376268 AAATATATTTTTTAAAATATAA
1 AAATATATTTTTTAAAATATAA
89376290 AAAT
1 AAAT
89376294 TTATAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATATATTTTTTAAAATATAA
Found at i:89376477 original size:12 final size:11
Alignment explanation
Indices: 89376452--89376476 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
89376442 AATTACATAT
89376452 AAATTTAAAAA
1 AAATTTAAAAA
89376463 AAATTTAAAAA
1 AAATTTAAAAA
89376474 AAA
1 AAA
89376477 AAAGTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTTAAAAA
Found at i:89377563 original size:34 final size:35
Alignment explanation
Indices: 89377489--89377572 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 35
89377479 ATTTTAAAAA
**
89377489 TAAATTAGGTTTTAGTGTTAGTTTATAAAAATTATT
1 TAAATTAGGTTTTAGTGTTA-TTTATAAAAATTAAG
89377525 TAAATTAGGTTTTA-TGGTT-TTTA-AACAAATTAAG
1 TAAATTAGGTTTTAGT-GTTATTTATAA-AAATTAAG
89377559 TAAATTAGAGTTTT
1 TAAATTAG-GTTTT
89377573 GAGAGTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.05
34 18 0.42
35 6 0.14
36 17 0.40
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (35 bp):
TAAATTAGGTTTTAGTGTTATTTATAAAAATTAAG
Found at i:89377717 original size:85 final size:83
Alignment explanation
Indices: 89377600--89377754 Score: 222
Period size: 85 Copynumber: 1.8 Consensus size: 83
89377590 TAGGGCTTAA
*
89377600 GGTTTATGGTTTTAAATAAATTAAATAAATTAGAGTT-TAAGGTTTAAAAATAAATTAAAATAGG
1 GGTTTATGGTTTTAAATAAATTAAATAAATTAGAGTTCTAAGGTTT-AAAACAAATTAAAATAGG
89377664 GCTTTAATTAAATTGATTGG
65 G-TTTAATTAAATTGATTGG
* * * * *
89377684 GGTTTATGGTTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAAACAAATTAAATTAGG
1 GGTTTATGG-TTTTAAATAAATTAAATAAATTAGAGTTCTAAGGTTTAAAACAAATTAAAATAGG
89377749 GTTTAA
65 GTTTAA
89377755 GGTTTAAGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
84 14 0.22
85 42 0.67
86 7 0.11
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (83 bp):
GGTTTATGGTTTTAAATAAATTAAATAAATTAGAGTTCTAAGGTTTAAAACAAATTAAAATAGGG
TTTAATTAAATTGATTGG
Found at i:89377721 original size:34 final size:31
Alignment explanation
Indices: 89377683--89377794 Score: 88
Period size: 35 Copynumber: 3.4 Consensus size: 31
89377673 AAATTGATTG
89377683 GGGTTTATGGTTTTTAAATAAATTAAGTAAATTA
1 GGGTTTA-GG-TTTTAAATAAATTAA-TAAATTA
*
89377717 GGGTTCTAGGGTTTTAAACAAA-T--TAAATTA
1 GGGTT-TA-GGTTTTAAATAAATTAATAAATTA
89377747 GGGTTTAAGG-TTTAAGATTAAATTTAATTAAATTA
1 GGGTTT-AGGTTTTAA-A-TAAA-TTAA-TAAATTA
*
89377782 GGGTTTAGTTTTT
1 GGGTTTAGGTTTT
89377795 TTTCAATGAC
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
28 5 0.08
29 4 0.06
30 16 0.25
32 1 0.02
33 1 0.02
34 17 0.27
35 20 0.31
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.44
Consensus pattern (31 bp):
GGGTTTAGGTTTTAAATAAATTAATAAATTA
Found at i:89378287 original size:128 final size:126
Alignment explanation
Indices: 89377844--89378348 Score: 615
Period size: 126 Copynumber: 4.0 Consensus size: 126
89377834 CTATTTTTAC
* * * * * *
89377844 CCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATTGTGTCAAAAATGTTTCAGACAGGAT
1 CCTGAAAAAATAA-ATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGAT
* * * *
89377909 GCACTGTCAGCAAAAATACA-AAAAAAAGCTCCCACGTGAACGCTC-TTTTCTATAATAGTT
65 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
* * * *
89377969 CCTGAAAAAATAATTTTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAGCAAGAT
1 CCTGAAAAAATAA-ATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGAT
* * * * * *
89378034 GTATTGTTAGAAAAATTAC-GAAAAAAAGCTACCACGTGGACGCTCTTTTTCTAAAGTAGTT
65 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
* * * *
89378095 CGTGAAAAAATAAATTTGAGAAGAAGTTTCTGAATAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 CCTGAAAAAATAAA-TTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGAT
* * * *
89378160 GCACTGTTAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACACTTTTTTTCTACAGTATTT
65 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
* * *
89378222 CTTGAAAAAAATGAAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACTCTTCAAATAGGA
1 CCTG-AAAAAAT-AAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGA
* * * *
89378287 TGCAATGTCAGCAAAATTTCTG-AAAAAAGCT-CCACGTGGACGCTCTATTTCTACAGTAGTT
64 TGCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
89378348 C
1 C
89378349 ATAATTGGCC
Statistics
Matches: 329, Mismatches: 45, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
125 94 0.29
126 114 0.35
127 49 0.15
128 69 0.21
129 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (126 bp):
CCTGAAAAAATAAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGATG
CACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
Found at i:89379609 original size:23 final size:23
Alignment explanation
Indices: 89379583--89379628 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
89379573 TTATGAGAGA
89379583 TAAAAAAGTACAAAGGTCCACAT
1 TAAAAAAGTACAAAGGTCCACAT
89379606 TAAAAAAGTACAAAGGTCCACAT
1 TAAAAAAGTACAAAGGTCCACAT
89379629 ACATGTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.17
Consensus pattern (23 bp):
TAAAAAAGTACAAAGGTCCACAT
Found at i:89382141 original size:42 final size:42
Alignment explanation
Indices: 89382092--89382238 Score: 188
Period size: 42 Copynumber: 3.3 Consensus size: 42
89382082 CATAGTTCAA
89382092 CTATGGTCTTACACATCTTCACATAAT-GATGTCATAGCCCAG
1 CTATGGTCTTACACATCTTCACAT-ATCGATGTCATAGCCCAG
* *
89382134 CTATGGTCTTACACATATTCATATATCGATGTCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATATCGATGTCATAGCCCAG
*
89382176 CTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT--C-T-TCACATATCGATGTCATAGCCCAG
89382225 CTATGGTCTTACAC
1 CTATGGTCTTACAC
89382239 GAATCACATA
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
41 2 0.02
42 51 0.55
45 2 0.02
48 1 0.01
49 36 0.39
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACACATCTTCACATATCGATGTCATAGCCCAG
Found at i:89382219 original size:49 final size:48
Alignment explanation
Indices: 89382158--89382327 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 48
89382148 ATATTCATAT
* *
89382158 ATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* *
89382206 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * *
89382254 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* *
89382300 ACCGATGCCATATCCCAGATATGGTCTT
1 ATCGATGCCATAGCCCAGATATGGTCTT
89382328 GTACGGAAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
46 26 0.24
47 36 0.34
48 13 0.12
49 32 0.30
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:89382385 original size:31 final size:31
Alignment explanation
Indices: 89382350--89382467 Score: 175
Period size: 31 Copynumber: 3.8 Consensus size: 31
89382340 CTTGTTACTT
* *
89382350 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
89382381 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
89382412 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
89382443 GTAGCCAAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
89382468 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
30 2 0.03
31 75 0.95
32 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:89382550 original size:50 final size:51
Alignment explanation
Indices: 89382443--89382571 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
89382433 CACTGATCAG
* * *
89382443 GTAGCCAAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
* *
89382494 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAAATAAGT
89382544 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
89382572 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
Found at i:89385222 original size:18 final size:18
Alignment explanation
Indices: 89385181--89385223 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
89385171 GACTGAGAAA
* *
89385181 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
89385199 ATGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
89385217 AGGATAC
1 AGGATAC
89385224 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:89386781 original size:52 final size:53
Alignment explanation
Indices: 89386720--89386829 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 53
89386710 TATAAAATAC
89386720 AAATTAATTAAAATTACATAAAT-AAAAAATATTAAATAATATTCAAATTTTA
1 AAATTAATTAAAATTACATAAATAAAAAAATATTAAATAATATTCAAATTTTA
*
89386772 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCCAATTTTA
1 AAATTAATTAAAATTACATAAAT-AAAAAAATATTAAATAATATTCAAATTTTA
89386826 AAAT
1 AAAT
89386830 AAATCGTTAC
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 23 0.42
54 32 0.58
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (53 bp):
AAATTAATTAAAATTACATAAATAAAAAAATATTAAATAATATTCAAATTTTA
Found at i:89389873 original size:19 final size:19
Alignment explanation
Indices: 89389838--89389882 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
89389828 GTTGGTGGCC
89389838 TTTAATTT-TATAAATTTTG
1 TTTAATTTATATAAA-TTTG
*
89389857 TTTAATTTATAT-TATTTG
1 TTTAATTTATATAAATTTG
89389875 TTT-ATTTA
1 TTTAATTTA
89389883 AAATAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.21
18 7 0.29
19 9 0.38
20 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTAATTTATATAAATTTG
Found at i:89392345 original size:5 final size:5
Alignment explanation
Indices: 89392335--89392366 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
89392325 AACCTTGTGA
89392335 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
89392367 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:89392360 original size:9 final size:9
Alignment explanation
Indices: 89392336--89392366 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
89392326 ACCTTGTGAA
89392336 AAATAAAAT
1 AAATAAAAT
89392345 AAAATAAAAT
1 -AAATAAAAT
89392355 AAATAAAAT
1 AAATAAAAT
89392364 AAA
1 AAA
89392367 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:89398837 original size:24 final size:24
Alignment explanation
Indices: 89398782--89398838 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
89398772 TGTGGATAAC
*
89398782 AATATTAGA-ATAAATATTAGATT
1 AATATTAAATATAAATATTAGATT
* * *
89398805 AACACTAAATATAAATGTTAGATT
1 AATATTAAATATAAATATTAGATT
89398829 AATATTAAAT
1 AATATTAAAT
89398839 TAATAAGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (24 bp):
AATATTAAATATAAATATTAGATT
Found at i:89400614 original size:3 final size:3
Alignment explanation
Indices: 89400606--89400640 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
89400596 CATTTAACTC
*
89400606 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
89400641 CTCCTCCATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:89401776 original size:27 final size:27
Alignment explanation
Indices: 89401745--89401831 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
89401735 AATAAATTTT
89401745 TTAATTGAATCAACCCATTCATAACAA
1 TTAATTGAATCAACCCATTCATAACAA
* * *
89401772 TTAATTTAAT--ACTCA-ACAATAA-AA
1 TTAATTGAATCAACCCATTC-ATAACAA
*
89401796 TTTTTAATTGAATCAACCCATTCATACCAA
1 ---TTAATTGAATCAACCCATTCATAACAA
89401826 TTAATT
1 TTAATT
89401832 TAATACTCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
24 3 0.07
25 8 0.18
27 24 0.53
29 7 0.16
30 3 0.07
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAATTGAATCAACCCATTCATAACAA
Found at i:89401794 original size:54 final size:54
Alignment explanation
Indices: 89401734--89401840 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
89401724 ATTATTGATT
*
89401734 CAATAAATTTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCAA
1 CAATAAAATTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCAA
*
89401788 CAATAAAATTTTTAATTGAATCAACCCATTCATACCAATTAATTTAATACTCA
1 CAATAAAATTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCA
89401841 TCGTATTCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (54 bp):
CAATAAAATTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCAA
Found at i:89402541 original size:10 final size:10
Alignment explanation
Indices: 89402528--89402570 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
89402518 CTCTCTCTCT
*
89402528 CACACACACA
1 CACACACGCA
89402538 CACACACGCA
1 CACACACGCA
*
89402548 GACACACGCA
1 CACACACGCA
*
89402558 GACACACGCA
1 CACACACGCA
89402568 CAC
1 CAC
89402571 TTGTTTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.42, C:0.47, G:0.12, T:0.00
Consensus pattern (10 bp):
CACACACGCA
Found at i:89406656 original size:14 final size:15
Alignment explanation
Indices: 89406630--89406661 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
89406620 TTAGGTTTAA
89406630 AAATTTTTATTAATT
1 AAATTTTTATTAATT
89406645 AAATTTTT-TTAATT
1 AAATTTTTATTAATT
89406659 AAA
1 AAA
89406662 AATCTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AAATTTTTATTAATT
Found at i:89415253 original size:21 final size:21
Alignment explanation
Indices: 89415227--89415267 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89415217 TCCAGCAACC
*
89415227 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
89415248 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
89415268 CCGTCCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:89430313 original size:18 final size:18
Alignment explanation
Indices: 89430290--89430326 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
89430280 CTGGGCTAGC
89430290 TAGACCTAGTTCCAACAA
1 TAGACCTAGTTCCAACAA
89430308 TAGACCTAGTTCCAACAA
1 TAGACCTAGTTCCAACAA
89430326 T
1 T
89430327 CTCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (18 bp):
TAGACCTAGTTCCAACAA
Found at i:89433787 original size:21 final size:21
Alignment explanation
Indices: 89433761--89433802 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
89433751 ATCTCTATCC
89433761 CATGACCAGATTGGAATAGGG
1 CATGACCAGATTGGAATAGGG
89433782 CATGACCAGATTGGAATAGGG
1 CATGACCAGATTGGAATAGGG
89433803 GAAGACTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19
Consensus pattern (21 bp):
CATGACCAGATTGGAATAGGG
Found at i:89443122 original size:91 final size:91
Alignment explanation
Indices: 89442961--89443153 Score: 210
Period size: 91 Copynumber: 2.1 Consensus size: 91
89442951 AAAAGGGTTA
* * ** * *
89442961 TGTAACATTTGGTACATGTACTTTTATAAAATATTTAATGTGATATATGTACTTTGAAAACGTTA
1 TGTATCATTTGGTACATGTACTTTTAAAAAATATCAAATGTGATATATATACTTTGAAAAAGTTA
* *
89443026 AATGTGGTACATGAACTATGAATTTG
66 AATGTGATACATGAACTATCAATTTG
* * * * *
89443052 TTTATTATTTGGTACTTGTACTTTTAAAAAATCTCAAATGT-AGTATTTATACTTT-AAAATAGT
1 TGTATCATTTGGTACATGTACTTTTAAAAAATATCAAATGTGA-TATATATACTTTGAAAA-AGT
* * *
89443115 TCAATGTGATACCTGAATTATCAATTTG
64 TAAATGTGATACATGAACTATCAATTTG
89443143 TGTATCATTTG
1 TGTATCATTTG
89443154 ATACCTATAC
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
90 5 0.06
91 77 0.94
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.44
Consensus pattern (91 bp):
TGTATCATTTGGTACATGTACTTTTAAAAAATATCAAATGTGATATATATACTTTGAAAAAGTTA
AATGTGATACATGAACTATCAATTTG
Found at i:89443237 original size:62 final size:62
Alignment explanation
Indices: 89443106--89443235 Score: 145
Period size: 62 Copynumber: 2.1 Consensus size: 62
89443096 ATTTATACTT
* * * * * *
89443106 TAAAATAGTTCAATGTGATACCTGAATTATCAATTTGTGTATCATTTGATACCTATACTTTCG
1 TAAAAT-GTCCAATGTGATACCTGAACTATCAATCTGTGTATCATTTGACACCTAGACTTTAG
* * *
89443169 TAAAATGTCCAATGTGGTACTTGAACTATCAATCTGTGTATTATTATGACACCTAGA-TTATAG
1 TAAAATGTCCAATGTGATACCTGAACTATCAATCTGTGTATCATT-TGACACCTAGACTT-TAG
89443232 TAAA
1 TAAA
89443236 TGCTAAATGT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 35 0.62
63 21 0.38
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (62 bp):
TAAAATGTCCAATGTGATACCTGAACTATCAATCTGTGTATCATTTGACACCTAGACTTTAG
Done.