Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008532.1 Hibiscus syriacus cultivar Beakdansim tig00111410_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 857509
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:582213 original size:43 final size:44
Alignment explanation
Indices: 582166--582248 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
582156 GTTTTGTCCC
* * *
582166 AAAAACGCCACTAAATGTTCTG-CATATAATGGCGTTTGTTTCG
1 AAAAAAGCCACTAAATGTTATGTCATATAATGGCATTTGTTTCG
* * *
582209 AAAAAAGCCGCTATATGTTATGTCATATAGTGGCATTTGT
1 AAAAAAGCCACTAAATGTTATGTCATATAATGGCATTTGT
582249 GACTGTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 18 0.55
44 15 0.45
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (44 bp):
AAAAAAGCCACTAAATGTTATGTCATATAATGGCATTTGTTTCG
Found at i:582487 original size:21 final size:21
Alignment explanation
Indices: 582463--582512 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
582453 TAAACTAGAC
*
582463 ATCCGTAACAACAAACTTCAA
1 ATCCATAACAACAAACTTCAA
* *
582484 ATCCATAACAAGAAACTTGAA
1 ATCCATAACAACAAACTTCAA
582505 ATCCATAA
1 ATCCATAA
582513 TAATAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.50, C:0.24, G:0.06, T:0.20
Consensus pattern (21 bp):
ATCCATAACAACAAACTTCAA
Found at i:584369 original size:21 final size:22
Alignment explanation
Indices: 584340--584385 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
584330 TCTATAAAAA
*
584340 TAAAATATT-AT-ATTATATTT
1 TAAAATATTAATAAATATATTT
584360 TAAAATTATTAATAAATATATTT
1 TAAAA-TATTAATAAATATATTT
584383 TAA
1 TAA
584386 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 2 0.09
23 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAATATTAATAAATATATTT
Found at i:584400 original size:23 final size:22
Alignment explanation
Indices: 584340--584401 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
584330 TCTATAAAAA
*
584340 TAAAA-TA-TTATATTATATTT
1 TAAAATTATTTATAATATATTT
*
584360 TAAAATTATTAATAAATATATTT
1 TAAAATTATTTAT-AATATATTT
584383 TAAGGAATT-TTTATAATAT
1 TAA--AATTATTTATAATAT
584402 TATTAGACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.15
21 2 0.06
22 3 0.09
23 16 0.47
24 4 0.12
25 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
TAAAATTATTTATAATATATTT
Found at i:584618 original size:25 final size:25
Alignment explanation
Indices: 584550--584656 Score: 69
Period size: 25 Copynumber: 4.2 Consensus size: 25
584540 AATAGTATCA
* *
584550 TATATTATTATAATATAATTGAGTATAT
1 TATATTATTA-AAAAT-ATT-AATATAT
* * *
584578 TAT-TGTAATAATAATATTATTATAT
1 TATAT-TATTAAAAATATTAATATAT
*
584603 TATATTATTAAAAATATTAATA-AA
1 TATATTATTAAAAATATTAATATAT
* *
584627 TATATT-TTAAATATGTTAATA-AT
1 TATATTATTAAAAATATTAATATAT
584650 TAATATT
1 T-ATATT
584657 TTTTTAAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
23 15 0.23
24 12 0.18
25 23 0.35
26 4 0.06
27 4 0.06
28 7 0.11
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
TATATTATTAAAAATATTAATATAT
Found at i:584645 original size:23 final size:23
Alignment explanation
Indices: 584603--584658 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
584593 ATTATTATAT
584603 TATATTATTAAAAATATTAATAAA
1 TATATT-TTAAAAATATTAATAAA
* * *
584627 TATATTTTAAATATGTTAATAAT
1 TATATTTTAAAAATATTAATAAA
584650 TAATATTTT
1 T-ATATTTT
584659 TTTAAAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATAAA
Found at i:585303 original size:68 final size:69
Alignment explanation
Indices: 585188--585327 Score: 203
Period size: 68 Copynumber: 2.0 Consensus size: 69
585178 AGCAGCAAAT
*
585188 GAGTTTGAGTAAACGGCAGGAATGAAAAAATAGGTCAAGGGGAAAAAATAAAAAAGGGTT-AAAG
1 GAGTTTGAGTAAACGACAGGAATGAAAAAATAGGTCAAGGGGAAAAAATAAAAAAGGGTTAAAAG
*
585252 GGGC
66 GCGC
* * * *
585256 GAGTTTGGGTAAACGACGGGAATGAAAAAAATAGGTCAAGGGG-AAAAATGAAAGAGGGTTAAAA
1 GAGTTTGAGTAAACGACAGGAATG-AAAAAATAGGTCAAGGGGAAAAAATAAAAAAGGGTTAAAA
585320 GGCGC
65 GGCGC
585325 GAG
1 GAG
585328 ACATAGAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
68 36 0.56
69 28 0.44
ACGTcount: A:0.45, C:0.06, G:0.34, T:0.14
Consensus pattern (69 bp):
GAGTTTGAGTAAACGACAGGAATGAAAAAATAGGTCAAGGGGAAAAAATAAAAAAGGGTTAAAAG
GCGC
Found at i:586234 original size:3 final size:3
Alignment explanation
Indices: 586228--586284 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
586218 TAATATATGC
586228 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
586276 TTA TT- TTA T
1 TTA TTA TTA T
586285 CTCGGGTTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:588848 original size:21 final size:21
Alignment explanation
Indices: 588824--588869 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
588814 AACAATTCTC
*
588824 TTCATGAAAAGATTAAATCCT
1 TTCATGAAAAGATTAAACCCT
* * *
588845 TTCATGTAAAGGTTAAGCCCT
1 TTCATGAAAAGATTAAACCCT
588866 TTCA
1 TTCA
588870 CCGAAAGGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TTCATGAAAAGATTAAACCCT
Found at i:601372 original size:85 final size:87
Alignment explanation
Indices: 601263--601444 Score: 244
Period size: 85 Copynumber: 2.1 Consensus size: 87
601253 ATTTTAAACA
* *
601263 TTATATTTGTTTTAAGTATTTTAGTTTAAATAGGTTTT-AGTATTTCAATTAGGATTTAGGATAT
1 TTATATTTATTTTAAGTATTTTAGTTTAAATAGGTTTTAAGTATTTCAATTAGGATTTAAGATAT
601327 T-ATTTTAAATATTATTTTATT
66 TAATTTTAAATATTATTTTATT
* * * * *
601348 TTATCTTTATTTTAGGTATTTTAGTTTAAATAGTTTTTAAGTGTTTTAATTAGGATTTAAGATAT
1 TTATATTTATTTTAAGTATTTTAGTTTAAATAGGTTTTAAGTATTTCAATTAGGATTTAAGATAT
*
601413 TAATTTTAAGA-ATTATCTTTAGT
66 TAATTTTAA-ATATTAT-TTTATT
*
601436 TTGTATTTA
1 TTATATTTA
601445 GGAATTTGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
85 34 0.41
86 24 0.29
87 12 0.14
88 13 0.16
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (87 bp):
TTATATTTATTTTAAGTATTTTAGTTTAAATAGGTTTTAAGTATTTCAATTAGGATTTAAGATAT
TAATTTTAAATATTATTTTATT
Found at i:603625 original size:20 final size:20
Alignment explanation
Indices: 603600--603639 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
603590 AAATTACACA
*
603600 AGAAAAGATGGTTACATCCC
1 AGAAAACATGGTTACATCCC
* *
603620 AGAAAACCTGGTTGCATCCC
1 AGAAAACATGGTTACATCCC
603640 GGGAAAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AGAAAACATGGTTACATCCC
Found at i:613521 original size:12 final size:12
Alignment explanation
Indices: 613504--613528 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
613494 TTGACCATAA
613504 CTATGAAGGTCT
1 CTATGAAGGTCT
613516 CTATGAAGGTCT
1 CTATGAAGGTCT
613528 C
1 C
613529 AAAAAATTAC
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:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (12 bp):
CTATGAAGGTCT
Found at i:614258 original size:19 final size:19
Alignment explanation
Indices: 614215--614263 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
614205 ATTGGAACAC
*
614215 CTAAAAACATGTAATTTTA
1 CTAAAAACATTTAATTTTA
* *
614234 AT-AAAACATTTTATTTTA
1 CTAAAAACATTTAATTTTA
*
614252 CTAAAAATATTT
1 CTAAAAACATTT
614264 GGTCTGCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (19 bp):
CTAAAAACATTTAATTTTA
Found at i:615120 original size:137 final size:139
Alignment explanation
Indices: 614935--615239 Score: 436
Period size: 137 Copynumber: 2.2 Consensus size: 139
614925 CTAACATTAA
* * * ** *
614935 TAATCCTAATTAATTTTAATCAATTATTCGATTCGAATAATTAAAATGGAACCTTGAGCAAAAGC
1 TAATCCTAATTAATTTTAGTCAATTATGCGATTCGAATAATTAAAATGGAACATCAAGAAAAAGC
* *
615000 GAGGACCAAATTAAGAATTCACCTAAATTTAAAGAATAAATTTAAAATTAGGCCCAAA-TGAA-G
66 GAGAACCAAATTAAGAATTCACATAAATTTAAAGAATAAATTTAAAATTAGGCCCAAAGTGAAGG
*
615063 CTCTAATAT
131 CTCTAATAC
615072 TAATCCTAATTAATTTTAGTCAATTATGCGATTCGAATAATTAAAATGGAACATCAAGAAAAAGC
1 TAATCCTAATTAATTTTAGTCAATTATGCGATTCGAATAATTAAAATGGAACATCAAGAAAAAGC
** * * * * *
615137 GAGAACCAAATTAAGAATTTGCATAAATTTAAGGATTATATTTTAAATTAGGCCTAAAGTGAAGG
66 GAGAACCAAATTAAGAATTCACATAAATTTAAAGAATAAATTTAAAATTAGGCCCAAAGTGAAGG
615202 CTCTAATAC
131 CTCTAATAC
615211 TAATCCTAATTAATTTTAAG-CAATTATGC
1 TAATCCTAATTAATTTT-AGTCAATTATGC
615240 AATTATTCAT
Statistics
Matches: 149, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
137 108 0.72
138 4 0.03
139 35 0.23
140 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.31
Consensus pattern (139 bp):
TAATCCTAATTAATTTTAGTCAATTATGCGATTCGAATAATTAAAATGGAACATCAAGAAAAAGC
GAGAACCAAATTAAGAATTCACATAAATTTAAAGAATAAATTTAAAATTAGGCCCAAAGTGAAGG
CTCTAATAC
Found at i:615591 original size:14 final size:14
Alignment explanation
Indices: 615567--615614 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
615557 ATTTAAGGCA
*
615567 AAAATTAAAATAAC
1 AAAATTTAAATAAC
615581 AAAATTTAAATAGA-
1 AAAATTTAAATA-AC
*
615595 AAAAATTAAATAAC
1 AAAATTTAAATAAC
615609 GAAAAT
1 -AAAAT
615615 AAACCAATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 1 0.04
14 22 0.79
15 5 0.18
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (14 bp):
AAAATTTAAATAAC
Found at i:616098 original size:18 final size:20
Alignment explanation
Indices: 616066--616105 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
616056 AAACAAAATG
616066 AAATAATATGCAAAAAT-TA
1 AAATAATATGCAAAAATGTA
*
616085 AAATAA-ATGTAAAAATGTA
1 AAATAATATGCAAAAATGTA
616104 AA
1 AA
616106 TGTAAATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
AAATAATATGCAAAAATGTA
Found at i:616106 original size:18 final size:19
Alignment explanation
Indices: 616060--616106 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
616050 TAATTGAAAC
616060 AAAATG-AAATAATATGCA
1 AAAATGTAAATAATATGCA
*
616078 AAAAT-TAAAATAA-ATGTA
1 AAAATGT-AAATAATATGCA
616096 AAAATGTAAAT
1 AAAATGTAAAT
616107 GTAAATGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.26
Consensus pattern (19 bp):
AAAATGTAAATAATATGCA
Found at i:620984 original size:18 final size:18
Alignment explanation
Indices: 620961--620995 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
620951 TTCCATCCGG
*
620961 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
620979 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
620996 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:622108 original size:7 final size:7
Alignment explanation
Indices: 622096--622133 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
622086 GTCAACAGTA
622096 GTCAACG
1 GTCAACG
622103 GTCAACGG
1 GTCAAC-G
622111 GTCAACG
1 GTCAACG
622118 GTCAACGG
1 GTCAAC-G
622126 GTCAACG
1 GTCAACG
622133 G
1 G
622134 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:622115 original size:8 final size:8
Alignment explanation
Indices: 622096--622167 Score: 73
Period size: 8 Copynumber: 9.4 Consensus size: 8
622086 GTCAACAGTA
622096 GTCAAC-G
1 GTCAACGG
622103 GTCAACGG
1 GTCAACGG
622111 GTCAAC-G
1 GTCAACGG
622118 GTCAACGG
1 GTCAACGG
622126 GTCAACGG
1 GTCAACGG
622134 GT---CGG
1 GTCAACGG
*
622139 GTCAACGA
1 GTCAACGG
*
622147 GTCGAGTCGG
1 GTC-A-ACGG
622157 GTCAACGG
1 GTCAACGG
622165 GTC
1 GTC
622168 GGGTAAACGG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
5 5 0.09
7 13 0.24
8 29 0.54
9 2 0.04
10 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:622116 original size:15 final size:15
Alignment explanation
Indices: 622096--622133 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
622086 GTCAACAGTA
622096 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
622111 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
622126 GTCAACGG
1 GTCAACGG
622134 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:622141 original size:13 final size:13
Alignment explanation
Indices: 622123--622185 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
622113 CAACGGTCAA
622123 CGGGTCAACGGGT
1 CGGGTCAACGGGT
622136 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
622154 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
622167 CGGGTAAACGGGT
1 CGGGTCAACGGGT
622180 CGGGTC
1 CGGGTC
622186 GGGTAAACGG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.65
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:622157 original size:18 final size:18
Alignment explanation
Indices: 622134--622168 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
622124 GGGTCAACGG
622134 GTCGGGTCAACGAGTCGA
1 GTCGGGTCAACGAGTCGA
*
622152 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGAGTCG
622169 GGTAAACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:622161 original size:31 final size:30
Alignment explanation
Indices: 622108--622203 Score: 115
Period size: 31 Copynumber: 3.2 Consensus size: 30
622098 CAACGGTCAA
*
622108 CGGGTCAACGGTC-A-ACGGGTCAACGGGT
1 CGGGTCAACGGTCGAGTCGGGTCAACGGGT
622136 CGGGTCAACGAGTCGAGTCGGGTCAACGGGT
1 CGGGTCAACG-GTCGAGTCGGGTCAACGGGT
* * *
622167 CGGGTAAACGGGTCGGGTCGGGTAAACGGGT
1 CGGGTCAAC-GGTCGAGTCGGGTCAACGGGT
*
622198 TGGGTC
1 CGGGTC
622204 GGGTTGTGAC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 10 0.17
29 3 0.05
30 1 0.02
31 43 0.74
32 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.44, T:0.17
Consensus pattern (30 bp):
CGGGTCAACGGTCGAGTCGGGTCAACGGGT
Found at i:622183 original size:18 final size:18
Alignment explanation
Indices: 622162--622207 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
622152 GTCGGGTCAA
622162 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
622180 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
622198 TGGGTCGGGT
1 CGGGTCGGGT
622208 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.15, G:0.52, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:625987 original size:18 final size:18
Alignment explanation
Indices: 625964--625998 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
625954 TTCCATCCGG
*
625964 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
625982 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
625999 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:627111 original size:7 final size:7
Alignment explanation
Indices: 627099--627136 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
627089 GTCAACAGTA
627099 GTCAACG
1 GTCAACG
627106 GTCAACGG
1 GTCAAC-G
627114 GTCAACG
1 GTCAACG
627121 GTCAACGG
1 GTCAAC-G
627129 GTCAACG
1 GTCAACG
627136 G
1 G
627137 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:627118 original size:8 final size:8
Alignment explanation
Indices: 627099--627170 Score: 73
Period size: 8 Copynumber: 9.4 Consensus size: 8
627089 GTCAACAGTA
627099 GTCAAC-G
1 GTCAACGG
627106 GTCAACGG
1 GTCAACGG
627114 GTCAAC-G
1 GTCAACGG
627121 GTCAACGG
1 GTCAACGG
627129 GTCAACGG
1 GTCAACGG
627137 GT---CGG
1 GTCAACGG
*
627142 GTCAACGA
1 GTCAACGG
*
627150 GTCGAGTCGG
1 GTC-A-ACGG
627160 GTCAACGG
1 GTCAACGG
627168 GTC
1 GTC
627171 GGGTAAACGG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
5 5 0.09
7 13 0.24
8 29 0.54
9 2 0.04
10 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:627119 original size:15 final size:15
Alignment explanation
Indices: 627099--627136 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
627089 GTCAACAGTA
627099 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
627114 GTCAACGGTCAACGG
1 GTCAACGGTCAACGG
627129 GTCAACGG
1 GTCAACGG
627137 GTCGGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (15 bp):
GTCAACGGTCAACGG
Found at i:627144 original size:13 final size:13
Alignment explanation
Indices: 627126--627188 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
627116 CAACGGTCAA
627126 CGGGTCAACGGGT
1 CGGGTCAACGGGT
627139 CGGGTCAACGAGTCGAGT
1 CGGGTCAAC--G--G-GT
627157 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
627170 CGGGTAAACGGGT
1 CGGGTCAACGGGT
627183 CGGGTC
1 CGGGTC
627189 GGGTAAACGG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.65
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:627160 original size:18 final size:18
Alignment explanation
Indices: 627137--627171 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
627127 GGGTCAACGG
627137 GTCGGGTCAACGAGTCGA
1 GTCGGGTCAACGAGTCGA
*
627155 GTCGGGTCAACGGGTCG
1 GTCGGGTCAACGAGTCG
627172 GGTAAACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GTCGGGTCAACGAGTCGA
Found at i:627164 original size:31 final size:30
Alignment explanation
Indices: 627111--627206 Score: 115
Period size: 31 Copynumber: 3.2 Consensus size: 30
627101 CAACGGTCAA
*
627111 CGGGTCAACGGTC-A-ACGGGTCAACGGGT
1 CGGGTCAACGGTCGAGTCGGGTCAACGGGT
627139 CGGGTCAACGAGTCGAGTCGGGTCAACGGGT
1 CGGGTCAACG-GTCGAGTCGGGTCAACGGGT
* * *
627170 CGGGTAAACGGGTCGGGTCGGGTAAACGGGT
1 CGGGTCAAC-GGTCGAGTCGGGTCAACGGGT
*
627201 TGGGTC
1 CGGGTC
627207 GGGTTGTGAC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 10 0.17
29 3 0.05
30 1 0.02
31 43 0.74
32 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.44, T:0.17
Consensus pattern (30 bp):
CGGGTCAACGGTCGAGTCGGGTCAACGGGT
Found at i:627186 original size:18 final size:18
Alignment explanation
Indices: 627165--627210 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
627155 GTCGGGTCAA
627165 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
627183 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
627201 TGGGTCGGGT
1 CGGGTCGGGT
627211 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.15, G:0.52, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:628088 original size:25 final size:26
Alignment explanation
Indices: 628033--628094 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
628023 CGTCCGAAAT
*
628033 TCTTCTAAAAAATGCTGACTAAATTAT
1 TCTTCT-AAAAATGCTGACTAAATTAG
* *
628060 TCTTCTAAAAATGTTGACTATATT-G
1 TCTTCTAAAAATGCTGACTAAATTAG
*
628085 TCTTTTAAAA
1 TCTTCTAAAA
628095 GCCCTTGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 9 0.29
26 16 0.52
27 6 0.19
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (26 bp):
TCTTCTAAAAATGCTGACTAAATTAG
Found at i:629111 original size:2 final size:2
Alignment explanation
Indices: 629104--629129 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
629094 CCTGTTATGA
629104 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
629130 GCAGATACTC
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):
AT
Found at i:629283 original size:39 final size:36
Alignment explanation
Indices: 629221--629423 Score: 130
Period size: 37 Copynumber: 5.8 Consensus size: 36
629211 GCAAACAGTT
629221 TTTTGAAAATACGTATATAATATATAGTTTCTAAAAACA
1 TTTTGAAAAT--GTATATAATATATAGTTT-TAAAAACA
* *
629260 TTTTGAAAATGTATATAATATATAGTTTTTAAAATA
1 TTTTGAAAATGTATATAATATATAGTTTTAAAAACA
*
629296 TTTT-AGAA---A-AT--TATATAGTTTTTAAAAACA
1 TTTTGAAAATGTATATAATATATAG-TTTTAAAAACA
* *
629326 TTTTTTGAAAAT-TATAT-A-GT-T--TTTAAAAAACA
1 --TTTTGAAAATGTATATAATATATAGTTTTAAAAACA
*
629358 TTTTTGAAAATTTATATATAATATATAGTTTT-AAAACA
1 -TTTTGAAAA--TGTATATAATATATAGTTTTAAAAACA
* ** *
629396 TTTTTAAAAAAT-TATATTATATAGTTTT
1 TTTTGAAAATGTATATAATATATAGTTTT
629424 TAAATAATTT
Statistics
Matches: 135, Mismatches: 13, Indels: 37
0.73 0.07 0.20
Matches are distributed among these distances:
29 7 0.05
30 9 0.07
31 12 0.09
32 15 0.11
33 4 0.03
34 20 0.15
35 8 0.06
36 14 0.10
37 27 0.20
38 6 0.04
39 13 0.10
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATGTATATAATATATAGTTTTAAAAACA
Found at i:629289 original size:66 final size:66
Alignment explanation
Indices: 629220--629343 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 66
629210 TGCAAACAGT
* *
629220 TTTTTGAAAATA-CGTATATAA-TATATAGTTTCTAAAAACA-TTTTGAAAATGTATATAATATA
1 TTTTT-AAAATATCGTAGAAAATTATATAGTTTCTAAAAACATTTTTGAAAAT-TATATAATATA
629282 TAG
64 TAG
** *
629285 TTTTTAAAATATTTTAGAAAATTATATAGTTTTTAAAAACATTTTTTGAAAATTATATA
1 TTTTTAAAATATCGTAGAAAATTATATAGTTTCTAAAAACA-TTTTTGAAAATTATATA
629344 GTTTTTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
64 6 0.12
65 10 0.20
66 18 0.36
67 6 0.12
68 10 0.20
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (66 bp):
TTTTTAAAATATCGTAGAAAATTATATAGTTTCTAAAAACATTTTTGAAAATTATATAATATATA
G
Found at i:629360 original size:32 final size:30
Alignment explanation
Indices: 629278--629375 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 30
629268 ATGTATATAA
* *
629278 TATATAGTTTTT-AAAATATTTTAGAAAAT
1 TATATAGTTTTTAAAAACATTTTTGAAAAT
629307 TATATAGTTTTTAAAAACATTTTTTGAAAAT
1 TATATAGTTTTTAAAAACA-TTTTTGAAAAT
629338 TATATAGTTTTTAAAAAACATTTTTGAAAATT
1 TATATAGTTTTT-AAAAACATTTTTGAAAA-T
629370 TATATA
1 TATATA
629376 TAATATATAG
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
29 12 0.19
30 5 0.08
31 32 0.51
32 14 0.22
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (30 bp):
TATATAGTTTTTAAAAACATTTTTGAAAAT
Found at i:629423 original size:24 final size:23
Alignment explanation
Indices: 629396--629440 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
629386 TTTTAAAACA
629396 TTTTTAAAAAATTATATTATATAG
1 TTTTTAAAAAATT-TATTATATAG
* *
629420 TTTTTAAATAATTTTTTATAT
1 TTTTTAAAAAATTTATTATAT
629441 TTATTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTTAAAAAATTTATTATATAG
Found at i:630744 original size:20 final size:20
Alignment explanation
Indices: 630721--630758 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
630711 TTACTGATTA
*
630721 TTTTAATTTTTATTATTTCT
1 TTTTAATTCTTATTATTTCT
*
630741 TTTTTATTCTTATTATTT
1 TTTTAATTCTTATTATTT
630759 TATTATATAT
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:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTAATTCTTATTATTTCT
Found at i:630759 original size:14 final size:13
Alignment explanation
Indices: 630742--630781 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
630732 ATTATTTCTT
630742 TTTTATTCTTATTA
1 TTTTATT-TTATTA
*
630756 TTTTATTATATATA
1 TTTTATTTTAT-TA
630770 TTTTATTTTATT
1 TTTTATTTTATT
630782 TTAATCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:630760 original size:28 final size:27
Alignment explanation
Indices: 630718--630781 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
630708 TTTTTACTGA
* * * *
630718 TTATTTTAAT-TTTTATTATTTCTTTT
1 TTATTTTATTATTTTATTATATATATT
630744 TTATTCTTATTATTTTATTATATATATT
1 TTATT-TTATTATTTTATTATATATATT
630772 TTATTTTATT
1 TTATTTTATT
630782 TTAATCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.16
27 9 0.28
28 18 0.56
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (27 bp):
TTATTTTATTATTTTATTATATATATT
Found at i:630792 original size:19 final size:19
Alignment explanation
Indices: 630718--630792 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
630708 TTTTTACTGA
*
630718 TTATTTTAATTTTTATTATT
1 TTATTTTAATCTTT-TTATT
* * *
630738 TCTTTTTTATTCTTATTATT
1 T-TATTTTAATCTTTTTATT
* *
630758 TTATTATATAT-ATTTTATT
1 TTATTTTA-ATCTTTTTATT
630777 TTATTTTAATCTTTTT
1 TTATTTTAATCTTTTT
630793 TTATTCTCTT
Statistics
Matches: 41, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.05
19 22 0.54
20 8 0.20
21 9 0.22
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTAATCTTTTTATT
Found at i:630804 original size:21 final size:19
Alignment explanation
Indices: 630770--630812 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
630760 ATTATATATA
*
630770 TTTTATTTTATTTTAATCTTT
1 TTTTATTCTATTTT--TCTTT
*
630791 TTTTATTCTCTTTTTCTTT
1 TTTTATTCTATTTTTCTTT
630810 TTT
1 TTT
630813 CTTTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTCTATTTTTCTTT
Found at i:631417 original size:54 final size:54
Alignment explanation
Indices: 631350--631505 Score: 240
Period size: 54 Copynumber: 2.9 Consensus size: 54
631340 ATCATTGTCT
* * * * * * *
631350 AACATATTCTTTATGCGTGGATATACGTGCGTATTACCATTTATTATTGTTTTA
1 AACATTTTTTTTATGCTTGTATATATGTGTGTATTACCATATATTATTGTTTTA
631404 AACATTTTTTTTATGCTTGTATATATGTGTGTATTACCATATATTATTGTTTTA
1 AACATTTTTTTTATGCTTGTATATATGTGTGTATTACCATATATTATTGTTTTA
*
631458 AACATTTATTTTATGCTTGTATATATGTGTGTATTACCATATATTATT
1 AACATTTTTTTTATGCTTGTATATATGTGTGTATTACCATATATTATT
631506 ATTTAATATG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (54 bp):
AACATTTTTTTTATGCTTGTATATATGTGTGTATTACCATATATTATTGTTTTA
Found at i:635360 original size:2 final size:2
Alignment explanation
Indices: 635351--635382 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
635341 ATTTTTTAAC
635351 AT AT -T 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
635383 ATTTGTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:637979 original size:19 final size:20
Alignment explanation
Indices: 637944--637989 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
637934 TAAATCCTTC
* *
637944 TTCAAAATTTCATTTTAGTT
1 TTCAAAATCTCATTTTAGCT
637964 TTCAAAATCT-ATTTTAGCT
1 TTCAAAATCTCATTTTAGCT
637983 TTCAAAA
1 TTCAAAA
637990 GAAAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (20 bp):
TTCAAAATCTCATTTTAGCT
Found at i:646386 original size:99 final size:99
Alignment explanation
Indices: 646211--646406 Score: 374
Period size: 99 Copynumber: 2.0 Consensus size: 99
646201 GAAGCCGTAA
646211 CTTCATACTCCGCCCTTTTCTCCCTCAATTTTTCCTAATAATAAAGTAAATAATTAATTCAAATA
1 CTTCATACTCCGCCCTTTTCTCCCTCAATTTTTCCTAATAATAAAGTAAATAATTAATTCAAATA
*
646276 AAAATATCATACTACATATATAAATAAAACATGG
66 AAAATAGCATACTACATATATAAATAAAACATGG
646310 CTTCATACTCCGCCCTTTTCTCCCTCAATTTTTCCTAATAATAAAGTAAATAATTAATTCAAATA
1 CTTCATACTCCGCCCTTTTCTCCCTCAATTTTTCCTAATAATAAAGTAAATAATTAATTCAAATA
*
646375 AAAATGGCATACTACATATATAAATAAAACAT
66 AAAATAGCATACTACATATATAAATAAAACAT
646407 AATTCAAATC
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.34
Consensus pattern (99 bp):
CTTCATACTCCGCCCTTTTCTCCCTCAATTTTTCCTAATAATAAAGTAAATAATTAATTCAAATA
AAAATAGCATACTACATATATAAATAAAACATGG
Found at i:647935 original size:59 final size:59
Alignment explanation
Indices: 647853--647968 Score: 214
Period size: 59 Copynumber: 2.0 Consensus size: 59
647843 CATCCGTTGG
*
647853 ATCGTGACAGTAAAAAACTTGTTTCACTTGAGAAGAAAATGCATATGGTTCATCCATCA
1 ATCGTGACAGTAAAAAACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCATCA
*
647912 ATCGTGATAGTAAAAAACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCAT
1 ATCGTGACAGTAAAAAACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCAT
647969 AGTGTGAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (59 bp):
ATCGTGACAGTAAAAAACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCATCA
Found at i:650900 original size:41 final size:43
Alignment explanation
Indices: 650839--650933 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 43
650829 GTTTAAAAAT
*** *
650839 GCCACTAAAG-AATTATTTTGTGGTAGCGTTT-TTAAACAAAC
1 GCCACTAAAGTAATTATTTTGTAACAGCGTTTGTCAAACAAAC
* * *
650880 GCCACTAAAGTACTTA-TTTGTAACGGCGTTTGTCAAATAAAC
1 GCCACTAAAGTAATTATTTTGTAACAGCGTTTGTCAAACAAAC
650922 GCCACTAAAGTA
1 GCCACTAAAGTA
650934 TGAGTTTTAG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 21 0.47
42 24 0.53
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.31
Consensus pattern (43 bp):
GCCACTAAAGTAATTATTTTGTAACAGCGTTTGTCAAACAAAC
Found at i:651855 original size:82 final size:83
Alignment explanation
Indices: 651769--651958 Score: 258
Period size: 83 Copynumber: 2.3 Consensus size: 83
651759 TTTTAGCGGT
* * *
651769 GTTTGTATAGAAGCGCTGCTAAAGTACTAATATGTT-ACGGCATTTATTG-AAAAACGCCACTAT
1 GTTTGTATAGAAACGCCGCTAAAGTACTAATATGTTGA-GGCATTTATTGAAAAAACACCACTAT
* *
651832 AGGTGAATGCTATTACGTC
65 AGGTGAACGCTATTACGGC
* * *
651851 GTTTGTATAAAAATGCCGCTAAAGTACTAATCTGTTGAGGCATTTATTGAAAAAACACCACTATA
1 GTTTGTATAGAAACGCCGCTAAAGTACTAATATGTTGAGGCATTTATTGAAAAAACACCACTATA
*
651916 GGTGAACGCTATTGCGGC
66 GGTGAACGCTATTACGGC
* *
651934 GTTTGAAAAGAAACGCCGCTAAAGT
1 GTTTGTATAGAAACGCCGCTAAAGT
651959 TACCATTTTG
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
82 42 0.45
83 51 0.55
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (83 bp):
GTTTGTATAGAAACGCCGCTAAAGTACTAATATGTTGAGGCATTTATTGAAAAAACACCACTATA
GGTGAACGCTATTACGGC
Found at i:655242 original size:20 final size:17
Alignment explanation
Indices: 655219--655262 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
655209 ATTAAATTAC
655219 AAAATATAAAAATTAATAGT
1 AAAATATAAAAA-TAAT--T
*
655239 AAAAAATAAAAATAATT
1 AAAATATAAAAATAATT
655256 AAAATAT
1 AAAATAT
655263 CAGTGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATATAAAAATAATT
Found at i:656075 original size:107 final size:107
Alignment explanation
Indices: 655889--656101 Score: 347
Period size: 107 Copynumber: 2.0 Consensus size: 107
655879 GCTTCGAATT
*
655889 TCCCTCTTTTAACCCTAAGGCCAAATATGGCCTCCATTTCCCCTAAAAATCCCTAGAATTTCCTA
1 TCCCTCTTTTAACCCTAAGACCAAATATGGCCTCCATTTCCCCTAAAAATCCCTAGAATTTCCTA
655954 GATCTAAGAAAATACCTTCGGAATTTTCAGTTCTCCGGTGAC
66 GATCTAAGAAAATACCTTCGGAATTTTCAGTTCTCCGGTGAC
* * *
655996 TCCCTCTTTTAACCCTAAGACCGAATATGGCCTCTATTTCCCCTAAAAATCCC-CGATATTTCCT
1 TCCCTCTTTTAACCCTAAGACCAAATATGGCCTCCATTTCCCCTAAAAATCCCTAGA-ATTTCCT
* * *
656060 AGATCTAAGAAAATACCTTCGGTATTTTTAGTTCTTCGGTGA
65 AGATCTAAGAAAATACCTTCGGAATTTTCAGTTCTCCGGTGA
656102 TGTTTGGGGT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
106 2 0.02
107 96 0.98
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (107 bp):
TCCCTCTTTTAACCCTAAGACCAAATATGGCCTCCATTTCCCCTAAAAATCCCTAGAATTTCCTA
GATCTAAGAAAATACCTTCGGAATTTTCAGTTCTCCGGTGAC
Found at i:657041 original size:45 final size:45
Alignment explanation
Indices: 656979--657337 Score: 531
Period size: 45 Copynumber: 8.0 Consensus size: 45
656969 CAGAAGGCTT
* *
656979 TTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCGGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
* *
657024 TTTGAAAACATCATGCACTG-ACAGACTTACAGATGACCCGGAGGC
1 TTTGAAAACATCATGCACTGTA-GGGCTTACAGATGACCCGGAGGC
* * *
657069 TTTAAAAACATCATGCACTGAAGGGCTTACAAATGACCCGGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
* * * *
657114 TTTGAAAACATCTTGCACTGAAGGGATTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
*
657159 TTTGAAAATATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
*
657204 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCAGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
** *
657249 TTTGAAAACATCATAAACTGAAGGGCTTACAGATGACCCGGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
* * *
657294 TTTGAAAACATCAAGCACTGTAGGTCTTATAGATGACCCGGAGG
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGG
657338 TTTTAAATAT
Statistics
Matches: 283, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
44 1 0.00
45 281 0.99
46 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
Found at i:659561 original size:75 final size:75
Alignment explanation
Indices: 659436--659608 Score: 201
Period size: 75 Copynumber: 2.3 Consensus size: 75
659426 GACATGAGTC
* *
659436 TTCAGCATGCCCTAACATTTGCTAATACAAACGTTCAAAATGAGTTAATATTC-CAATTTCTGAT
1 TTCAGCATGCCCTAACATTTGTTAATACAAACGTTCAAAATGAGTTAATATTCTCAA-TTATGAT
659500 TGAAATGGACT
65 TGAAATGGACT
* * *
659511 TTCAGCATGGCCC-ATCATTTGTTGATACAAACGTTCAAAAT-A-TATCAATATTCTTAATTATG
1 TTCAGCAT-GCCCTAACATTTGTTAATACAAACGTTCAAAATGAGT-T-AATATTCTCAATTATG
**
659573 ATTGAAATGGGGT
63 ATTGAAATGGACT
* *
659586 TTCAACATGCCCTAGCATTTGTT
1 TTCAGCATGCCCTAACATTTGTT
659609 TTTTTATTGA
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
73 1 0.01
74 6 0.07
75 71 0.85
76 6 0.07
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (75 bp):
TTCAGCATGCCCTAACATTTGTTAATACAAACGTTCAAAATGAGTTAATATTCTCAATTATGATT
GAAATGGACT
Found at i:665013 original size:20 final size:17
Alignment explanation
Indices: 664990--665033 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
664980 ATTAAATTGC
664990 AAAATATAAAAATTAATAGT
1 AAAATATAAAAA-TAAT--T
*
665010 AAAAAATAAAAATAATT
1 AAAATATAAAAATAATT
665027 AAAATAT
1 AAAATAT
665034 CAGTGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATATAAAAATAATT
Found at i:667409 original size:21 final size:21
Alignment explanation
Indices: 667385--667430 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
667375 AATAATTCTC
*
667385 TTCATGAAAAGATTAAATCCT
1 TTCATGAAAAGATTAAACCCT
* * *
667406 TTCATGTAAAGGTTAAGCCCT
1 TTCATGAAAAGATTAAACCCT
667427 TTCA
1 TTCA
667431 CCGAAAGGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TTCATGAAAAGATTAAACCCT
Found at i:678814 original size:9 final size:9
Alignment explanation
Indices: 678800--678855 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
678790 AACATTTCCC
678800 CTTTTTTTT
1 CTTTTTTTT
678809 CTTTTTTTT
1 CTTTTTTTT
678818 CTTTTTTCTT
1 CTTTTTT-TT
*
678828 -TTAGTTTTT
1 CTT-TTTTTT
* *
678837 CTTTCTATT
1 CTTTTTTTT
678846 CTTTTCTTTT
1 CTTTT-TTTT
678856 TCTATTTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
9 27 0.73
10 10 0.27
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:678824 original size:16 final size:16
Alignment explanation
Indices: 678803--678856 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
678793 ATTTCCCCTT
678803 TTTTTTCTTTTTTTTC
1 TTTTTTCTTTTTTTTC
*
678819 TTTTTTCTTTTAGTTT-
1 TTTTTTCTTTT-TTTTC
* *
678835 TTCTTTCTATTCTTTTC
1 TTTTTTCT-TTTTTTTC
678852 TTTTT
1 TTTTT
678857 CTATTTGAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTC
Found at i:679928 original size:85 final size:87
Alignment explanation
Indices: 679819--679977 Score: 241
Period size: 85 Copynumber: 1.9 Consensus size: 87
679809 ATTTTAAACA
* *
679819 TTATATTTGTTTTAAGTATTTTAGTTTAAATAGGTTTT-AGTATTTCAATTAGGATTTAGGATAT
1 TTATATTTATTTTAAGTATTTTAGTTTAAATAGGTTTTAAGTATTTCAATTAGGATTTAAGATAT
679883 T-ATTTTAAATATTATTTTATT
66 TAATTTTAAATATTATTTTATT
* * * * *
679904 TTATCTTTATTTTAGGTATTTTAGTTTAAATAGTTTTTAAGTGTTTTAATTAGGATTTAAGATAT
1 TTATATTTATTTTAAGTATTTTAGTTTAAATAGGTTTTAAGTATTTCAATTAGGATTTAAGATAT
679969 TAATTTTAA
66 TAATTTTAA
679978 GAATTATCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 34 0.52
86 24 0.37
87 7 0.11
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (87 bp):
TTATATTTATTTTAAGTATTTTAGTTTAAATAGGTTTTAAGTATTTCAATTAGGATTTAAGATAT
TAATTTTAAATATTATTTTATT
Found at i:682180 original size:21 final size:21
Alignment explanation
Indices: 682156--682203 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
682146 AATTATACAA
682156 GAAAAGATGGTTACATCCCAG
1 GAAAAGATGGTTACATCCCAG
** * *
682177 GAAAACCTGGTTGCATCCCGG
1 GAAAAGATGGTTACATCCCAG
682198 GAAAAG
1 GAAAAG
682204 TTCCAAAGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (21 bp):
GAAAAGATGGTTACATCCCAG
Found at i:693011 original size:19 final size:19
Alignment explanation
Indices: 692968--693016 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
692958 ATTGGAACAC
*
692968 CTAAAAACATGTAATTTTA
1 CTAAAAACATTTAATTTTA
* *
692987 AT-AAAACATTTTATTTTA
1 CTAAAAACATTTAATTTTA
*
693005 CTAAAAATATTT
1 CTAAAAACATTT
693017 GGTCTGCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (19 bp):
CTAAAAACATTTAATTTTA
Found at i:693753 original size:142 final size:137
Alignment explanation
Indices: 693561--693991 Score: 384
Period size: 137 Copynumber: 3.1 Consensus size: 137
693551 CCAAGTCATG
* * * * *
693561 TTTAATAAATTATT-GAGTCGAATAGTCAAAATGGAACCTCGAGCATAAGCGAAGACCAAATCGA
1 TTTAATCAATTATTCGATTCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAAGACCAAAT-GA
* * * * * * *
693625 A-AATTCTCCT-AGGTTAAAGGATTAAGCTTGAAATTAAGCCTAAAACAGAGGTTCTAACATTAA
65 AGAATTCACCTAAAGTTAAA-GAATAAACTTAAAATTAAGCCT-AAA-AGAAGCTCT-A-A-TAA
693688 TAATCCTAATTAAT
124 TAATCCTAATTAAT
* * *
693702 TTTAATCAATTATTCGATTCGAATAATTAAAATGGAACCTTGAGCAAAAGCGATGACCAAATTAA
1 TTTAATCAATTATTCGATTCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAAGACCAAATGAA
* * * * *
693767 GAATTCACCTAAATTTAAAGAATAAATTTAAAATTAGGCCTAAATGAAGCTCTAATATTAATCCT
66 GAATTCACCTAAAGTTAAAGAATAAACTTAAAATTAAGCCTAAAAGAAGCTCTAATAATAATCCT
693832 AATTAAT
131 AATTAAT
* * * * * *
693839 TTTAGTCAATTATGCGATTCGAATAATTAAAATGGAACATCAAGAAAAAGC-AAGAACCAAATTA
1 TTTAATCAATTATTCGATTCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAAG-ACCAAATGA
** * * * * * * * * * *
693903 AGAATTTGCATAAATTTAAGGATTATATTTTAAATTAGGCCTAAAGTGAAGGCTCTAATACTAAT
65 AGAATTCACCTAAAGTTAAAGAATAAACTTAAAATTAAGCCTAAA-AGAA-GCTCTAATAATAAT
693968 CCTAATTAATT
128 CCTAATTAA-T
*
693979 TTTAAGCAATTAT
1 TTTAATCAATTAT
693992 GCAATTATTC
Statistics
Matches: 246, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
136 2 0.01
137 108 0.44
138 5 0.02
139 23 0.09
140 18 0.07
141 18 0.07
142 66 0.27
143 6 0.02
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (137 bp):
TTTAATCAATTATTCGATTCGAATAATTAAAATGGAACCTCGAGCAAAAGCGAAGACCAAATGAA
GAATTCACCTAAAGTTAAAGAATAAACTTAAAATTAAGCCTAAAAGAAGCTCTAATAATAATCCT
AATTAAT
Found at i:693888 original size:137 final size:139
Alignment explanation
Indices: 693688--693993 Score: 422
Period size: 137 Copynumber: 2.2 Consensus size: 139
693678 CTAACATTAA
* * * ** *
693688 TAATCCTAATTAATTTTAATCAATTATTCGATTCGAATAATTAAAATGGAACCTTGAGCAAAAGC
1 TAATCCTAATTAATTTTAGTCAATTATGCGATTCGAATAATTAAAATGGAACATCAAGAAAAAGC
* *
693753 GATG-ACCAAATTAAGAATTCACCTAAATTTAAAGAATAAATTTAAAATTAGGCCTAAA-TGAA-
66 -AAGAACCAAATTAAGAATTCACATAAATTTAAAGAATAAATTTAAAATTAGGCCTAAAGTGAAG
*
693815 GCTCTAATAT
130 GCTCTAATAC
693825 TAATCCTAATTAATTTTAGTCAATTATGCGATTCGAATAATTAAAATGGAACATCAAGAAAAAGC
1 TAATCCTAATTAATTTTAGTCAATTATGCGATTCGAATAATTAAAATGGAACATCAAGAAAAAGC
** * * * *
693890 AAGAACCAAATTAAGAATTTGCATAAATTTAAGGATTATATTTTAAATTAGGCCTAAAGTGAAGG
66 AAGAACCAAATTAAGAATTCACATAAATTTAAAGAATAAATTTAAAATTAGGCCTAAAGTGAAGG
693955 CTCTAATAC
131 CTCTAATAC
693964 TAATCCTAATTAATTTTTAAG-CAATTATGC
1 TAATCCTAATTAA-TTTT-AGTCAATTATGC
693994 AATTATTCAT
Statistics
Matches: 149, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
136 2 0.01
137 106 0.71
138 4 0.03
139 22 0.15
140 13 0.09
141 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (139 bp):
TAATCCTAATTAATTTTAGTCAATTATGCGATTCGAATAATTAAAATGGAACATCAAGAAAAAGC
AAGAACCAAATTAAGAATTCACATAAATTTAAAGAATAAATTTAAAATTAGGCCTAAAGTGAAGG
CTCTAATAC
Found at i:694861 original size:18 final size:20
Alignment explanation
Indices: 694829--694868 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
694819 AAACAAAATG
694829 AAATAATATGCAAAAAT-TA
1 AAATAATATGCAAAAATGTA
*
694848 AAATAA-ATGTAAAAATGTA
1 AAATAATATGCAAAAATGTA
694867 AA
1 AA
694869 TGTAAATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
AAATAATATGCAAAAATGTA
Found at i:694869 original size:18 final size:19
Alignment explanation
Indices: 694823--694869 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
694813 TAATTGAAAC
694823 AAAATG-AAATAATATGCA
1 AAAATGTAAATAATATGCA
*
694841 AAAAT-TAAAATAA-ATGTA
1 AAAATGT-AAATAATATGCA
694859 AAAATGTAAAT
1 AAAATGTAAAT
694870 GTAAATGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.26
Consensus pattern (19 bp):
AAAATGTAAATAATATGCA
Found at i:696750 original size:15 final size:15
Alignment explanation
Indices: 696732--696764 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
696722 TCCCTTTTTC
*
696732 TTTTTTTTTCAATGT
1 TTTTTTTTTCAATAT
696747 TTTTTTTTTCAATAT
1 TTTTTTTTTCAATAT
696762 TTT
1 TTT
696765 CAATTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTTTTTCAATAT
Found at i:702312 original size:24 final size:24
Alignment explanation
Indices: 702280--702328 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
702270 AAGTGCCTTA
702280 ATACTCTTGCCTAGTTGATTTTGT
1 ATACTCTTGCCTAGTTGATTTTGT
702304 ATACTCTTGCCTAGTTGATTTTGT
1 ATACTCTTGCCTAGTTGATTTTGT
702328 A
1 A
702329 CTTCATTTTT
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:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (24 bp):
ATACTCTTGCCTAGTTGATTTTGT
Found at i:704606 original size:622 final size:623
Alignment explanation
Indices: 703418--704673 Score: 2104
Period size: 622 Copynumber: 2.0 Consensus size: 623
703408 AGTCTTGTTA
703418 ATTTCATTCATGTTGAAATTAATGAAAAATTAGCTAAAGTAACATGGCAACAATTGCAGGATAAC
1 ATTT-ATTCATGTTGAAATTAATGAAAAATTAGCTAAAGTAACATGGCAACAATTGCAGGATAAC
* *
703483 ATCGGTAGCCAATTCATCTTTGAGAGAAAATCCCAATTTTTCCAACGTTTGGATGTAGTCCATCA
65 ATCGGTAGCCAATTCATCTTTGAGAGAAAATCCCAACTTTTCCAACGTTTGGATGTAGCCCATCA
*
703548 TCTTGATGACATGAGCTCCAACTGGAGATCCCTCTTCCATTTTGCATTAAAATAGAGCTTTAGAG
130 TCTTGATGACATGAGCTCCAACTGGAGATCCCTCTGCCATTTTGCATTAAAATAGAGCTTTAGAG
* *
703613 GTATCATACCTCTCTTGAAGTGCTTGACCTTCATATATTTCTTTGAGATTTTGAATCATCTCATA
195 GTATCATACCTCTCTTGAAGTGCTTGACATTCATATATTTCCTTGAGATTTTGAATCATCTCATA
*
703678 TGCAACCATGTCCTAATGTTGCCTCTGAAGCTCGGGAGTCATGGTGGCAAGCATTAGACATCCAA
260 TGCAACCATGTCCTAATGTTGCCTCTGAAGCTCGGGAGTCATGGTGGCAAGCATTAGACAACCAA
703743 CATCTAACATATAATCCATATGTTTCTTAAATTTGTATTTGTCATCTCTAGAAGAATCAGTTTCC
325 CATCTAACATATAATCCATATGTTTCTTAAATTTGTATTTGTCATCTCTAGAAGAATCAGTTTCC
*
703808 AGTTCATCAGGAACAGATTCTTCAATGACATATTCCTTCATTTCCTGTTTTAGAACAATTCTCAA
390 AGTTCATCAGGAACAGATTCTTCAATGACATATTCCTTCATTTCCTCTTTTAGAACAATTCTCAA
* *
703873 ATTACTAAACCAGTCAAGGAAGTTTATGCCATTAAACTTCTCATTCTCAATGAGTGATCACAGTG
455 ATTACGAAACCAGTCAAGGAAGTTTATGCCATTAAACTTCTCATTCTCAATGAGTGATCAAAGTG
* * * *
703938 ATAAAGTGTTATTTTCCATTAAATCTATAATAATGGAAATATTAAAGTAAGTAAATTTACC-AAA
520 ATAAAGTGTTATTTGCCATTAAATATACAACAATGGAAATATTAAAGTAAGTAAATTTACCGAAA
*
704002 AATTTATAAATAGGTCTTTATTTACAAATTACTCCCAAT
585 AATTTAAAAATAGGTCTTTATTTACAAATTACTCCCAAT
* * * * * *
704041 ATTTATTCATGTTGAAATTAATGACAAATTGGCTAAATTAATATGGCAACGATTGCATGATAACA
1 ATTTATTCATGTTGAAATTAATGAAAAATTAGCTAAAGTAACATGGCAACAATTGCAGGATAACA
* *
704106 TCGGTAGTCAATTCATCTTTGAGAGGAAATCCCAACTTTTCCAACGTTTGGATGTAGCCCATCAT
66 TCGGTAGCCAATTCATCTTTGAGAGAAAATCCCAACTTTTCCAACGTTTGGATGTAGCCCATCAT
* * * *
704171 CTTGATGACATGAGCTCCTACTGGAGATCCTTCTGCCATTTTTCATTGAAATAGAGCTTTAGAGG
131 CTTGATGACATGAGCTCCAACTGGAGATCCCTCTGCCATTTTGCATTAAAATAGAGCTTTAGAGG
* *
704236 TATCATACCTCTCTTGACGTGCTTG-CAATTCATATATTTCCTTGAGATTTTGGATCATCTCATA
196 TATCATACCTCTCTTGAAGTGCTTGAC-ATTCATATATTTCCTTGAGATTTTGAATCATCTCATA
* *
704300 TGCAACCATGTCCTCATGTTGCCTCTGAAGCTCGGGAGTTATGGTGGCAAGCATTAGACAACCAA
260 TGCAACCATGTCCTAATGTTGCCTCTGAAGCTCGGGAGTCATGGTGGCAAGCATTAGACAACCAA
* * * *
704365 CGTCTAACATATCATCCATATGTTTCTTAAATTTGTATTTGTCATCTCTAGAAGCATTAGTTTCC
325 CATCTAACATATAATCCATATGTTTCTTAAATTTGTATTTGTCATCTCTAGAAGAATCAGTTTCC
*
704430 AGTTCATCAGGAACATG-TTCTTCAATGACATATTCCTTCCTTTCCTCTTTTAGAACAATTCTCA
390 AGTTCATCAGGAACA-GATTCTTCAATGACATATTCCTTCATTTCCTCTTTTAGAACAATTCTCA
* *
704494 AATTACGAAACCAGTCAAGGAAGTTTATGCCATTAAGCTTCTCATTCTTAATGAGTGATCAAAGT
454 AATTACGAAACCAGTCAAGGAAGTTTATGCCATTAAACTTCTCATTCTCAATGAGTGATCAAAGT
*
704559 GATAAAGTGTTGTTTGCCATTAAATATACAACAATGGAAATATTAAAGTAAGTAAATTTACCGAA
519 GATAAAGTGTTATTTGCCATTAAATATACAACAATGGAAATATTAAAGTAAGTAAATTTACCGAA
*
704624 AAATTTAAAAATAGGTCTTTATTTACAAATTACTCCCACT
584 AAATTTAAAAATAGGTCTTTATTTACAAATTACTCCCAAT
704664 ATTTTATTCA
1 A-TTTATTCA
704674 AAATTAAAAA
Statistics
Matches: 590, Mismatches: 39, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
621 1 0.00
622 535 0.91
623 46 0.08
624 8 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (623 bp):
ATTTATTCATGTTGAAATTAATGAAAAATTAGCTAAAGTAACATGGCAACAATTGCAGGATAACA
TCGGTAGCCAATTCATCTTTGAGAGAAAATCCCAACTTTTCCAACGTTTGGATGTAGCCCATCAT
CTTGATGACATGAGCTCCAACTGGAGATCCCTCTGCCATTTTGCATTAAAATAGAGCTTTAGAGG
TATCATACCTCTCTTGAAGTGCTTGACATTCATATATTTCCTTGAGATTTTGAATCATCTCATAT
GCAACCATGTCCTAATGTTGCCTCTGAAGCTCGGGAGTCATGGTGGCAAGCATTAGACAACCAAC
ATCTAACATATAATCCATATGTTTCTTAAATTTGTATTTGTCATCTCTAGAAGAATCAGTTTCCA
GTTCATCAGGAACAGATTCTTCAATGACATATTCCTTCATTTCCTCTTTTAGAACAATTCTCAAA
TTACGAAACCAGTCAAGGAAGTTTATGCCATTAAACTTCTCATTCTCAATGAGTGATCAAAGTGA
TAAAGTGTTATTTGCCATTAAATATACAACAATGGAAATATTAAAGTAAGTAAATTTACCGAAAA
ATTTAAAAATAGGTCTTTATTTACAAATTACTCCCAAT
Found at i:707959 original size:14 final size:12
Alignment explanation
Indices: 707926--708061 Score: 80
Period size: 13 Copynumber: 10.5 Consensus size: 12
707916 AATTTTTCTC
*
707926 TTCTCTCTTTTT
1 TTCTTTCTTTTT
707938 TATCTTTCTTTCATT
1 T-TCTTTCTTT--TT
707953 TTCTTTCTTTTT
1 TTCTTTCTTTTT
707965 TTC-TTCTTTTT
1 TTCTTTCTTTTT
* *
707976 TGTCTCTCTTCTT
1 T-TCTTTCTTTTT
707989 TTCTTT-TTCTTT
1 TTCTTTCTT-TTT
*
708001 TTCTTTGATTCTTT
1 TTCTTT-CTT-TTT
708015 TTCTTT-TTTCTT
1 TTCTTTCTTT-TT
* *
708027 ACTCATTATTATTTTT
1 -TTC--T-TTCTTTTT
708043 TTCTTCTCTTTTT
1 TTCTT-TCTTTTT
708056 TTCTTT
1 TTCTTT
708062 TTTCTTTTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 30
0.73 0.06 0.22
Matches are distributed among these distances:
11 12 0.12
12 26 0.26
13 29 0.29
14 21 0.21
15 6 0.06
16 4 0.04
17 3 0.03
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.74
Consensus pattern (12 bp):
TTCTTTCTTTTT
Found at i:707998 original size:38 final size:39
Alignment explanation
Indices: 707926--708004 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 39
707916 AATTTTTCTC
*
707926 TTCTCTCTTTTTTATCTTTCTTTCATTTTCTTTCTTTTT
1 TTCTCTCTTTTTTATCTCTCTTTCATTTTCTTTCTTTTT
*
707965 TTCT-TCTTTTTTGTCTCTC-TTC-TTTTCTTT-TTCTTT
1 TTCTCTCTTTTTTATCTCTCTTTCATTTTCTTTCTT-TTT
708001 TTCT
1 TTCT
708005 TTGATTCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
35 2 0.05
36 15 0.41
37 3 0.08
38 13 0.35
39 4 0.11
ACGTcount: A:0.03, C:0.22, G:0.01, T:0.75
Consensus pattern (39 bp):
TTCTCTCTTTTTTATCTCTCTTTCATTTTCTTTCTTTTT
Found at i:708005 original size:20 final size:19
Alignment explanation
Indices: 707933--708063 Score: 67
Period size: 18 Copynumber: 6.7 Consensus size: 19
707923 CTCTTCTCTC
*
707933 TTTTTTATCTTTCT-TTC-A
1 TTTTTT-TCTTTTTCTTCTA
707951 TTTTCTTTCTTTTT-TTCT-
1 TTTT-TTTCTTTTTCTTCTA
* * * *
707969 TCTTTTTTGTCTCTCTTCTT
1 T-TTTTTTCTTTTTCTTCTA
707989 TTCTTTTTCTTTTTCTT-TGA
1 TT-TTTTTCTTTTTCTTCT-A
708009 TTCTTTTTCTTTTTTCTTACTCA
1 TT-TTTTTC-TTTTTCTT-CT-A
* *
708032 TTATTATT-TTTTTCTTCTC
1 TT-TTTTTCTTTTTCTTCTA
708051 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
708064 TCTTTTTTTG
Statistics
Matches: 89, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
18 24 0.27
19 18 0.20
20 23 0.26
21 16 0.18
23 8 0.09
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTTCTTTTTCTTCTA
Found at i:708064 original size:20 final size:20
Alignment explanation
Indices: 707918--708067 Score: 82
Period size: 20 Copynumber: 7.5 Consensus size: 20
707908 CCCCCTTAAA
707918 TTTTTCTCTTCTCTCTTTTTT-
1 TTTTT-TCTTCTCT-TTTTTTC
* *
707939 ATCTTTCTT-TCATTTTCTTTC
1 TTTTTTCTTCTC-TTTT-TTTC
*
707960 TTTTTTTCTTCT-TTTTTGTC
1 -TTTTTTCTTCTCTTTTTTTC
* * *
707980 TCTCTTCTT-T-TCTTTTTC
1 TTTTTTCTTCTCTTTTTTTC
*
707998 -TTTTTCTT-TGATTCTTTTTC
1 TTTTTTCTTCT-CTT-TTTTTC
* *
708018 TTTTTTCTTACTCATTATTAT-
1 TTTTTTCTT-CTC-TTTTTTTC
708039 TTTTTTCTTCTCTTTTTTTC
1 TTTTTTCTTCTCTTTTTTTC
708059 TTTTTTCTT
1 TTTTTTCTT
708068 TTTTTGTCTC
Statistics
Matches: 99, Mismatches: 17, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
17 7 0.07
18 7 0.07
19 18 0.18
20 29 0.29
21 24 0.24
22 10 0.10
23 4 0.04
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (20 bp):
TTTTTTCTTCTCTTTTTTTC
Found at i:711503 original size:21 final size:20
Alignment explanation
Indices: 711477--711521 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
711467 ATTGAAACAA
711477 AAAAAAT-AAGATGCATAATGT
1 AAAAAATCAA-ATGCA-AATGT
711498 AAAAAATGCAAATGCAAATGT
1 AAAAAAT-CAAATGCAAATGT
711519 AAA
1 AAA
711522 GATGCAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 15 0.68
22 5 0.23
23 2 0.09
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (20 bp):
AAAAAATCAAATGCAAATGT
Found at i:711528 original size:20 final size:22
Alignment explanation
Indices: 711487--711529 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
711477 AAAAAATAAG
711487 ATGCATAATGTAAAAAATGCAA
1 ATGCATAATGTAAAAAATGCAA
*
711509 ATGCA-AATGT-AAAGATGCAA
1 ATGCATAATGTAAAAAATGCAA
711529 A
1 A
711530 GGTACAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.21
Consensus pattern (22 bp):
ATGCATAATGTAAAAAATGCAA
Found at i:712273 original size:14 final size:14
Alignment explanation
Indices: 712254--712303 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
712244 ATCTATGGTA
712254 AAAATTAAAATAAG
1 AAAATTAAAATAAG
*
712268 AAAATTTAAAT-AG
1 AAAATTAAAATAAG
*
712281 TAAAATT-AAATAAC
1 -AAAATTAAAATAAG
*
712295 AAAAATAAA
1 AAAATTAAA
712304 TCAATCGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (14 bp):
AAAATTAAAATAAG
Found at i:715036 original size:40 final size:40
Alignment explanation
Indices: 714911--715020 Score: 211
Period size: 40 Copynumber: 2.8 Consensus size: 40
714901 ACCGTAGTGC
714911 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
*
714951 TACACATAAGGTCGTGCCCACCATATACACCGAAGAGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
714991 TACACATAAGGTCGTGCCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
715021 TTAGTGTCCT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
Found at i:715898 original size:30 final size:31
Alignment explanation
Indices: 715842--715900 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
715832 AACCATTCAC
*
715842 AACTTTTACAAAATTGCATAATTGGTCCCCT
1 AACTTTTACAAAATTACATAATTGGTCCCCT
715873 AACTTTT-CAAAAATTACATAA-TGGTCCC
1 AACTTTTAC-AAAATTACATAATTGGTCCC
715901 AAATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (31 bp):
AACTTTTACAAAATTACATAATTGGTCCCCT
Found at i:718750 original size:16 final size:15
Alignment explanation
Indices: 718730--718773 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
718720 TAATCATCTC
*
718730 TTTTCTTTATTTTCT
1 TTTTCTTTATTTTAT
*
718745 TCTTTCTTTTTTTTAT
1 T-TTTCTTTATTTTAT
*
718761 TTTTTTTTATTTT
1 TTTTCTTTATTTT
718774 TTATCTCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTTATTTTAT
Found at i:718766 original size:10 final size:10
Alignment explanation
Indices: 718751--718775 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
718741 TTCTTCTTTC
718751 TTTTTTTTAT
1 TTTTTTTTAT
718761 TTTTTTTTAT
1 TTTTTTTTAT
718771 TTTTT
1 TTTTT
718776 ATCTCTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:722978 original size:16 final size:16
Alignment explanation
Indices: 722929--722993 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
722919 AAGGTTAAGA
*
722929 AAAGAATAAGGTAATG
1 AAAGAATAAGGAAATG
* *
722945 AAATAAGAA--AAGATG
1 AAAGAATAAGGAA-ATG
722960 AAAGAATAAGGAAATG
1 AAAGAATAAGGAAATG
* * *
722976 AAATAGTAAGAAAATG
1 AAAGAATAAGGAAATG
722992 AA
1 AA
722994 GATACATACA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 1 0.03
15 10 0.26
16 25 0.66
17 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (16 bp):
AAAGAATAAGGAAATG
Found at i:723203 original size:15 final size:15
Alignment explanation
Indices: 723185--723218 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
723175 TTTTTTTGGT
*
723185 TTTTGTTTTTTCTTC
1 TTTTCTTTTTTCTTC
*
723200 TTTTCTTTTTTTTTC
1 TTTTCTTTTTTCTTC
723215 TTTT
1 TTTT
723219 TGTTGCAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTCTTTTTTCTTC
Found at i:730413 original size:2 final size:2
Alignment explanation
Indices: 730406--730454 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
730396 TCAATCTACA
730406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
730448 AT AT AT A
1 AT AT AT A
730455 ACAATAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:730628 original size:85 final size:85
Alignment explanation
Indices: 730480--730645 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 85
730470 ATACAATCAC
* * ** *
730480 GACACACGAATGTGTGTCATCTTTTTTAATGGTGTGTGCTTCAACGACACGCAATGTAAGTCATA
1 GACACACAAATGTGTGTCATCTTATTTAATGACGGGTGCTTCAACGACACGCAATGTAAGTCATA
* *
730545 CATGCATGTCATAAATTTAT
66 AATGCATGTCAAAAATTTAT
* * *
730565 GACACACAAATGTGTGTCATCTTAATTT-ATGACGGGTGCTTCAATGACGCTCAATG-AACGTCA
1 GACACACAAATGTGTGTCATCTT-ATTTAATGACGGGTGCTTCAACGACACGCAATGTAA-GTCA
*
730628 TAAATGCGTGTCAAAAAT
64 TAAATGCATGTCAAAAAT
730646 GTGCATCATA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 2 0.03
85 63 0.93
86 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATCTTATTTAATGACGGGTGCTTCAACGACACGCAATGTAAGTCATA
AATGCATGTCAAAAATTTAT
Found at i:730640 original size:13 final size:13
Alignment explanation
Indices: 730623--730684 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 13
730613 GCTCAATGAA
730623 CGTCATAAATGCG
1 CGTCATAAATGCG
* * *
730636 TGTCAAAAATGTG
1 CGTCATAAATGCG
* **
730649 CATCATAAATTTG
1 CGTCATAAATGCG
*
730662 TGTCATAAATGCG
1 CGTCATAAATGCG
730675 CGTCATAAAT
1 CGTCATAAAT
730685 TTATGACGCA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:730685 original size:26 final size:26
Alignment explanation
Indices: 730623--730686 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
730613 GCTCAATGAA
** *
730623 CGTCATAAATGCGTGTCAAAAATGTG
1 CGTCATAAATTTGTGTCAAAAATGCG
* *
730649 CATCATAAATTTGTGTCATAAATGCG
1 CGTCATAAATTTGTGTCAAAAATGCG
730675 CGTCATAAATTT
1 CGTCATAAATTT
730687 ATGACGCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (26 bp):
CGTCATAAATTTGTGTCAAAAATGCG
Found at i:734043 original size:29 final size:31
Alignment explanation
Indices: 733978--734045 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
733968 AAATTACCAT
* *
733978 TTTGGTC-CCTAAACTTTTCAAAGTTTATAC
1 TTTGGTCACCTAAACTTTACAAAGTTTATAA
*
734008 TTTGGTCACC-AAACTTTAGAAA-TTTATAA
1 TTTGGTCACCTAAACTTTACAAAGTTTATAA
734037 TTTGGTCAC
1 TTTGGTCAC
734046 TCACTAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 15 0.44
30 17 0.50
31 2 0.06
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (31 bp):
TTTGGTCACCTAAACTTTACAAAGTTTATAA
Found at i:734919 original size:20 final size:20
Alignment explanation
Indices: 734896--734985 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
734886 GTTTCTGCAA
734896 TCGCAACGCGATTTCCAAAT
1 TCGCAACGCGATTTCCAAAT
* *
734916 TCGCAATGTGATTTCCAAAT
1 TCGCAACGCGATTTCCAAAT
*
734936 TCGCAACACGGAATTT-CAAAT
1 TCGCAACGC-G-ATTTCCAAAT
* **
734957 TCGCAACTCGATTTCTGAAT
1 TCGCAACGCGATTTCCAAAT
734977 TCGCAACGC
1 TCGCAACGC
734986 AAATTTCTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
19 4 0.07
20 36 0.62
21 14 0.24
22 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGATTTCCAAAT
Found at i:735070 original size:40 final size:40
Alignment explanation
Indices: 735026--735102 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
735016 TTCACAACAA
**
735026 GATTTTCT-AAATCAAAACACGAATTTTTTTTTCGCAACTC
1 GATTTT-TGAAATCAAAACACGAATTTTAATTTCGCAACTC
* **
735066 GATTTTTGAATTCGCAACACGAATTTTAATTTCGCAA
1 GATTTTTGAAATCAAAACACGAATTTTAATTTCGCAA
735103 TAGCTTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.03
40 30 0.97
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (40 bp):
GATTTTTGAAATCAAAACACGAATTTTAATTTCGCAACTC
Found at i:735079 original size:20 final size:20
Alignment explanation
Indices: 735041--735102 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
735031 TCTAAATCAA
**
735041 AACACGAATTTTTTTTTCGC
1 AACACGAATTTTAATTTCGC
* *
735061 AACTCGATTTTTGAA-TTCGC
1 AACACGAATTTT-AATTTCGC
735081 AACACGAATTTTAATTTCGC
1 AACACGAATTTTAATTTCGC
735101 AA
1 AA
735103 TAGCTTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
AACACGAATTTTAATTTCGC
Found at i:736110 original size:24 final size:24
Alignment explanation
Indices: 736033--736098 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
736023 GTATTCGAAA
736033 TTTGATCTTGGTCAATACCCAGGC
1 TTTGATCTTGGTCAATACCCAGGC
*
736057 TTTGATCTTGGTCAATACCCGGGC
1 TTTGATCTTGGTCAATACCCAGGC
736081 TTTGATCTTGGTCAATAC
1 TTTGATCTTGGTCAATAC
736099 TCAGATTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGGC
Found at i:738412 original size:18 final size:18
Alignment explanation
Indices: 738378--738413 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
738368 AAACAAAAGG
**
738378 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
738396 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
738414 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:738733 original size:16 final size:16
Alignment explanation
Indices: 738712--738747 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
738702 TGTAGATTGA
* *
738712 AATTAAACAACAAATC
1 AATTAAACAAAAAAAC
738728 AATTAAACAAAAAAAC
1 AATTAAACAAAAAAAC
738744 AATT
1 AATT
738748 CTTATTTACA
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:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (16 bp):
AATTAAACAAAAAAAC
Found at i:740183 original size:63 final size:63
Alignment explanation
Indices: 740090--740208 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 63
740080 CCACATAAAA
* *
740090 CACCATTGTCATCGCGTAAAACATCTACCTCACCACGTAAAG-ACCGTACCTCATCATGCCATG
1 CACCATTGTCATCACGTAAAACATCTACCTCACCACGCAAAGCACCG-ACCTCATCATGCCATG
* ** * *
740153 CACCATTGTCGTCACGTAAAGTA-CTGACCTCATCACGCAAAGCACTGACCTCATCA
1 CACCATTGTCATCACGTAAAACATCT-ACCTCACCACGCAAAGCACCGACCTCATCA
740209 CGTAACTCCC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
62 2 0.04
63 42 0.89
64 3 0.06
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.22
Consensus pattern (63 bp):
CACCATTGTCATCACGTAAAACATCTACCTCACCACGCAAAGCACCGACCTCATCATGCCATG
Found at i:740194 original size:21 final size:21
Alignment explanation
Indices: 740164--740210 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
740154 ACCATTGTCG
* *
740164 TCACGTAAAGTACTGACCTCA
1 TCACGCAAAGCACTGACCTCA
740185 TCACGCAAAGCACTGACCTCA
1 TCACGCAAAGCACTGACCTCA
740206 TCACG
1 TCACG
740211 TAACTCCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.19
Consensus pattern (21 bp):
TCACGCAAAGCACTGACCTCA
Found at i:740394 original size:42 final size:42
Alignment explanation
Indices: 740328--740425 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
740318 GTGATGGAAT
* * *
740328 AGGTGATGGCTCTCGGTGTGGAGTTGTATAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGTTGTAGAATCGACTCGATC
*
740370 AGGTAATGGCTCTCGGTGTCGAGTTGTAGAATCGACTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGTTGTAGAATCGACTCGATC
740412 AGGTGATGGCTCTC
1 AGGTGATGGCTCTC
740426 CAAGTGGGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.30
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGTTGTAGAATCGACTCGATC
Found at i:741944 original size:20 final size:20
Alignment explanation
Indices: 741921--741963 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
741911 TTTGAAACTT
*
741921 AAATTCGCAACACGAAAATG
1 AAATCCGCAACACGAAAATG
* *
741941 AAATCCGTAACGCGAAAATG
1 AAATCCGCAACACGAAAATG
741961 AAA
1 AAA
741964 ATTACAACGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (20 bp):
AAATCCGCAACACGAAAATG
Found at i:742379 original size:22 final size:22
Alignment explanation
Indices: 742354--742399 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
742344 AGGGGGTCAC
*
742354 CGGATATGGGGACGGATGTCGT
1 CGGAGATGGGGACGGATGTCGT
742376 CGGAGATGGGGACGGATGTCGT
1 CGGAGATGGGGACGGATGTCGT
742398 CG
1 CG
742400 TAGAGAGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.15, G:0.48, T:0.20
Consensus pattern (22 bp):
CGGAGATGGGGACGGATGTCGT
Found at i:742575 original size:20 final size:20
Alignment explanation
Indices: 742550--742616 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
742540 ACACGCTTTA
*
742550 CGAATTTGACTTCTGTGTTG
1 CGAATTTAACTTCTGTGTTG
742570 CGAATTTAACTTCTGTGTTG
1 CGAATTTAACTTCTGTGTTG
* *
742590 CGAATTACAAATT-TGTGTTG
1 CGAATT-TAACTTCTGTGTTG
742610 CG-ATTTA
1 CGAATTTA
742617 CAAATTCGCG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 34 0.81
21 4 0.10
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.43
Consensus pattern (20 bp):
CGAATTTAACTTCTGTGTTG
Found at i:742643 original size:20 final size:20
Alignment explanation
Indices: 742586--742651 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
742576 TAACTTCTGT
* * *
742586 GTTGCGAATTACAAATTTGT
1 GTTGCGATTTACAAATTCGC
742606 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
742626 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
742646 GTTGCG
1 GTTGCG
742652 GAAAAGAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:744291 original size:21 final size:21
Alignment explanation
Indices: 744267--744306 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
744257 CAAGCATTGG
744267 TATTTTCAAATAAATAAGCCC
1 TATTTTCAAATAAATAAGCCC
*
744288 TATTTTCTAATAAATAAGC
1 TATTTTCAAATAAATAAGC
744307 TTAAGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (21 bp):
TATTTTCAAATAAATAAGCCC
Found at i:745364 original size:25 final size:26
Alignment explanation
Indices: 745309--745370 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
745299 CGTCTGAAAT
*
745309 TCTTCTAAAAAATGCTGACTAAATTAT
1 TCTTCT-AAAAATGCTGACTAAATTAG
* *
745336 TCTTCTAAAAATGTTGACTATATT-G
1 TCTTCTAAAAATGCTGACTAAATTAG
*
745361 TCTTTTAAAA
1 TCTTCTAAAA
745371 GCCCTTGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 9 0.29
26 16 0.52
27 6 0.19
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (26 bp):
TCTTCTAAAAATGCTGACTAAATTAG
Found at i:746384 original size:2 final size:2
Alignment explanation
Indices: 746377--746409 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
746367 CCTGTTATGA
746377 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
746410 GTAGATACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:746566 original size:60 final size:57
Alignment explanation
Indices: 746496--746623 Score: 141
Period size: 60 Copynumber: 2.2 Consensus size: 57
746486 TGCAAACAGT
* *
746496 TTTTTGAAAATACGTATATAATATATAGTTTCTAAAAACA-TTTTGAAATGTATTATAATAG
1 TTTTT-AAAATACGTAGAAAATATATAGTTTCTAAAAACATTTTTGAAA---ATTAT-ATAG
*** *
746557 TTTTTAAAATTTTTAGAAAATATATAGTTTTTAAAAACATTTTTTGAAAATTATATAG
1 TTTTTAAAATACGTAGAAAATATATAGTTTCTAAAAACA-TTTTTGAAAATTATATAG
746615 TTTTTAAAA
1 TTTTTAAAA
746624 AACATTTTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
58 13 0.22
59 5 0.08
60 28 0.47
61 5 0.08
62 8 0.14
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (57 bp):
TTTTTAAAATACGTAGAAAATATATAGTTTCTAAAAACATTTTTGAAAATTATATAG
Found at i:746630 original size:32 final size:30
Alignment explanation
Indices: 746517--746645 Score: 142
Period size: 31 Copynumber: 4.2 Consensus size: 30
746507 ACGTATATAA
*
746517 TATATAGTTTCTAAAAACA-TTTTGAAATGTAT
1 TATATAGTTTTTAAAAACATTTTTGAAA---AT
746549 TATAATAGTTTTT--AAA-ATTTTTAGAAAA-
1 TAT-ATAGTTTTTAAAAACATTTTT-GAAAAT
746577 TATATAGTTTTTAAAAACATTTTTTGAAAAT
1 TATATAGTTTTTAAAAACA-TTTTTGAAAAT
746608 TATATAGTTTTTAAAAAACATTTTTGAAAATT
1 TATATAGTTTTT-AAAAACATTTTTGAAAA-T
746640 TATATA
1 TATATA
746646 TATATATAGT
Statistics
Matches: 86, Mismatches: 1, Indels: 20
0.80 0.01 0.19
Matches are distributed among these distances:
27 9 0.10
28 3 0.03
29 4 0.05
30 7 0.08
31 34 0.40
32 21 0.24
33 8 0.09
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (30 bp):
TATATAGTTTTTAAAAACATTTTTGAAAAT
Found at i:746679 original size:36 final size:39
Alignment explanation
Indices: 746608--746685 Score: 117
Period size: 36 Copynumber: 2.1 Consensus size: 39
746598 TTTTGAAAAT
*
746608 TATATAGTTTTTAAAAAACATTTTTGAAAATTTATATATA
1 TATATAGTTTTT-AAAAACATTTTTGAAAAATTATATATA
746648 TATATAG-TTTT-AAAACATTTTT-AAAAATTATATATA
1 TATATAGTTTTTAAAAACATTTTTGAAAAATTATATATA
746684 TA
1 TA
746686 GTTTTTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
36 15 0.41
37 11 0.30
39 4 0.11
40 7 0.19
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (39 bp):
TATATAGTTTTTAAAAACATTTTTGAAAAATTATATATA
Found at i:746682 original size:38 final size:39
Alignment explanation
Indices: 746608--746685 Score: 117
Period size: 37 Copynumber: 2.1 Consensus size: 39
746598 TTTTGAAAAT
*
746608 TATATAGTTTTTAAAAAACATTTTTGAAAATTTATATATA
1 TATATAGTTTTT-AAAAACATTTTTAAAAATTTATATATA
746648 TATATAG-TTTT-AAAACATTTTTAAAAA-TTATATATA
1 TATATAGTTTTTAAAAACATTTTTAAAAATTTATATATA
746684 TA
1 TA
746686 GTTTTTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
36 11 0.30
37 15 0.41
39 4 0.11
40 7 0.19
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (39 bp):
TATATAGTTTTTAAAAACATTTTTAAAAATTTATATATA
Found at i:746685 original size:32 final size:32
Alignment explanation
Indices: 746516--746690 Score: 102
Period size: 31 Copynumber: 5.4 Consensus size: 32
746506 TACGTATATA
*
746516 ATATATAGTTTCTAAAAACA-TTTT-GAAATGTAT
1 ATATATAGTTT-T-AAAACATTTTTAAAAAT-TAT
*
746549 -TATAATAGTTTTTAAA-ATTTTTAGAAAA-TAT
1 ATAT-ATAGTTTTAAAACATTTTTA-AAAATTAT
* *
746580 ATAGT-T--TTTAAAAACATTTTTTGAAAATTAT
1 ATA-TATAGTTTTAAAACA-TTTTTAAAAATTAT
*
746611 ATAGT-T--TTTAAAAAACATTTTTGAAAATTTATATAT
1 ATA-TATAGTTT-TAAAACATTTTT-AAAA---AT-TAT
746647 ATATATAGTTTTAAAACATTTTTAAAAATTAT
1 ATATATAGTTTTAAAACATTTTTAAAAATTAT
746679 ATATATAGTTTT
1 ATATATAGTTTT
746691 TAAATAATTT
Statistics
Matches: 117, Mismatches: 7, Indels: 37
0.73 0.04 0.23
Matches are distributed among these distances:
29 6 0.05
30 6 0.05
31 33 0.28
32 31 0.26
33 13 0.11
35 3 0.03
36 11 0.09
37 11 0.09
38 3 0.03
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (32 bp):
ATATATAGTTTTAAAACATTTTTAAAAATTAT
Found at i:747848 original size:27 final size:29
Alignment explanation
Indices: 747818--747882 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
747808 TTACTTTGTT
*
747818 TTTATTTAATTTTATTTTT-TATTAT-TA
1 TTTATTTAATATTATTTTTGTATTATATA
* *
747845 TTTAATTAATATTATTTTTGTGTTATATA
1 TTTATTTAATATTATTTTTGTATTATATA
747874 TTTCATTTA
1 TTT-ATTTA
747883 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 17 0.55
28 5 0.16
29 5 0.16
30 4 0.13
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTATTTAATATTATTTTTGTATTATATA
Found at i:747947 original size:13 final size:13
Alignment explanation
Indices: 747922--747974 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
747912 TTTTTACTGA
*
747922 TTATT-TTAATTT
1 TTATTATTATTTT
*
747934 TTATTATTCTTTT
1 TTATTATTATTTT
*
747947 TTATTCTTATTATT
1 TTATTATTATT-TT
747961 TTATTATATATTTT
1 TTATTAT-TATTTT
747975 ATGTTATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 5 0.15
13 14 0.42
14 10 0.30
15 4 0.12
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:747963 original size:46 final size:46
Alignment explanation
Indices: 747891--747999 Score: 109
Period size: 46 Copynumber: 2.3 Consensus size: 46
747881 TATTTCTTTG
*
747891 AATCTTTTTATTATTCTTCCTTTTTTACTGAT-TATTTTAAT-TT-TTATT
1 AATC-TTTT-TTATTCTTCATTTTTTA-TGATATATTTT-ATGTTATT-TT
* *
747939 ATTCTTTTTTATTCTT-ATTATTTTATTATATATTTTATGTTATTTT
1 AATCTTTTTTATTCTTCATT-TTTTATGATATATTTTATGTTATTTT
747985 AATCTTTTTTATTCT
1 AATCTTTTTTATTCT
748000 CTTTTTCTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
45 7 0.13
46 37 0.70
47 6 0.11
48 3 0.06
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (46 bp):
AATCTTTTTTATTCTTCATTTTTTATGATATATTTTATGTTATTTT
Found at i:748629 original size:55 final size:54
Alignment explanation
Indices: 748559--748706 Score: 233
Period size: 55 Copynumber: 2.7 Consensus size: 54
748549 TAACATATTC
* * * * * *
748559 TTTATGCGTGGATATACGTGCGTATTACCATTTATTATTGTTTTAAACATTTTTT
1 TTTATGCTTGTATATATGTGTGTATTACCATATATTATTGTTTTAAACA-TTTAT
748614 TTTATGCTTGTATATATGTGTGTATTACCATATATTATTGTTTTAAACATTTAT
1 TTTATGCTTGTATATATGTGTGTATTACCATATATTATTGTTTTAAACATTTAT
748668 TTTATGCTTGTATATATGTGTGTATTACCATATATTATT
1 TTTATGCTTGTATATATGTGTGTATTACCATATATTATT
748707 ATTTAATATG
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
54 43 0.49
55 44 0.51
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.53
Consensus pattern (54 bp):
TTTATGCTTGTATATATGTGTGTATTACCATATATTATTGTTTTAAACATTTAT
Found at i:755212 original size:19 final size:20
Alignment explanation
Indices: 755177--755222 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
755167 TAAATCCTTC
* *
755177 TTCAAAATTTCATTTTAGTT
1 TTCAAAATCTCATTTTAGCT
755197 TTCAAAATCT-ATTTTAGCT
1 TTCAAAATCTCATTTTAGCT
755216 TTCAAAA
1 TTCAAAA
755223 GAAAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (20 bp):
TTCAAAATCTCATTTTAGCT
Found at i:762783 original size:45 final size:45
Alignment explanation
Indices: 762733--762830 Score: 187
Period size: 45 Copynumber: 2.2 Consensus size: 45
762723 CTTTATGTGA
*
762733 CGTTTTTTTATGTAAAACGCCGATATTGTTTGTGTTAATTAGTGG
1 CGTTTTTTTATGTAAAACGCCGATATTGTTTGTGTTAATTAGCGG
762778 CGTTTTTTTATGTAAAACGCCGATATTGTTTGTGTTAATTAGCGG
1 CGTTTTTTTATGTAAAACGCCGATATTGTTTGTGTTAATTAGCGG
762823 CGTTTTTT
1 CGTTTTTT
762831 ATTACAAAGC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.20, C:0.10, G:0.21, T:0.48
Consensus pattern (45 bp):
CGTTTTTTTATGTAAAACGCCGATATTGTTTGTGTTAATTAGCGG
Found at i:765188 original size:59 final size:59
Alignment explanation
Indices: 765106--765221 Score: 214
Period size: 59 Copynumber: 2.0 Consensus size: 59
765096 CATCCATTGG
*
765106 ATCGTGACAGTAAAAAACTTGTTTCACTTGAGAAGAAAATGCATATGGTTCATCCATCA
1 ATCGTGACAGTAAAAAACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCATCA
*
765165 ATCGTGATAGTAAAAAACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCAT
1 ATCGTGACAGTAAAAAACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCAT
765222 AGTGTGAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (59 bp):
ATCGTGACAGTAAAAAACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCATCA
Found at i:768968 original size:82 final size:83
Alignment explanation
Indices: 768882--769071 Score: 226
Period size: 83 Copynumber: 2.3 Consensus size: 83
768872 TTTTAGCGGT
* * * *
768882 GTTTGTATAGAAGCGCTGCTAAAGTACTAATATGTT-ACGGCATTTATTG-AAAAACGCCACTAT
1 GTTTGTATAAAAACGCCGCTAAAGTACTAATATGTTGA-GGCATTTATTGAAAAAACACCACTAT
*
768945 AGGTGAATGCTATTACGTC
65 AGGTGAACGCTATTACGTC
* * *
768964 GTTTGTATAAAAATGCCGCTAAAGTGCTAATCTGTTGAGGCATTTATTGAAAAAACACCACTATA
1 GTTTGTATAAAAACGCCGCTAAAGTACTAATATGTTGAGGCATTTATTGAAAAAACACCACTATA
*
769029 GGTGAACGCTATTGCAG-C
66 GGTGAACGCTATTAC-GTC
* *
769047 ATTTG-AAAAGAAACGCCGCTAAAGT
1 GTTTGTATAA-AAACGCCGCTAAAGT
769072 TACCATTTTG
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
82 44 0.48
83 47 0.51
84 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (83 bp):
GTTTGTATAAAAACGCCGCTAAAGTACTAATATGTTGAGGCATTTATTGAAAAAACACCACTATA
GGTGAACGCTATTACGTC
Found at i:772347 original size:20 final size:17
Alignment explanation
Indices: 772324--772367 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
772314 ATTAAATTAC
772324 AAAATATAAAAATTAATAGT
1 AAAATATAAAAA-TAAT--T
*
772344 AAAAAATAAAAATAATT
1 AAAATATAAAAATAATT
772361 AAAATAT
1 AAAATAT
772368 CAGTGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATATAAAAATAATT
Found at i:773182 original size:107 final size:107
Alignment explanation
Indices: 772996--773209 Score: 358
Period size: 107 Copynumber: 2.0 Consensus size: 107
772986 GCTTCGAATT
*
772996 TCCCTCTTTTAACCCTAAGGCCGAATATGGCCTCCATTTCCCCTAAAAATCCCTAGAATTTCCTA
1 TCCCTCTTTTAACCCTAAGACCGAATATGGCCTCCATTTCCCCTAAAAATCCCTAGAATTTCCTA
773061 GATCTAAGAAAATACCTTCGGAATTTTCAGTTCTCCGGTGAC
66 GATCTAAGAAAATACCTTCGGAATTTTCAGTTCTCCGGTGAC
* *
773103 TCCCTCTTTTAACCCTAAGACCGAATATGGCCTCTATTTCCCCTAAAAAT-CCTCGATATTTCCT
1 TCCCTCTTTTAACCCTAAGACCGAATATGGCCTCCATTTCCCCTAAAAATCCCTAGA-ATTTCCT
* * *
773167 AGATCTAAGAAAATACCTTCGGTATTTTTAGTTCTTCGGTGAC
65 AGATCTAAGAAAATACCTTCGGAATTTTCAGTTCTCCGGTGAC
773210 GTTTGGGGTT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
106 5 0.05
107 95 0.95
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.33
Consensus pattern (107 bp):
TCCCTCTTTTAACCCTAAGACCGAATATGGCCTCCATTTCCCCTAAAAATCCCTAGAATTTCCTA
GATCTAAGAAAATACCTTCGGAATTTTCAGTTCTCCGGTGAC
Found at i:774221 original size:45 final size:45
Alignment explanation
Indices: 774159--774517 Score: 549
Period size: 45 Copynumber: 8.0 Consensus size: 45
774149 CAGAAGGCTT
* *
774159 TTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCGGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
*
774204 TTTGAAAACATCATGCACTGATA-AGCTTACAGATGACCCGGAGGC
1 TTTGAAAACATCATGCACTG-TAGGGCTTACAGATGACCCGGAGGC
* * *
774249 TTTAAAAACATCATGCACTGAAGGGCTTACAAATGACCCGGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
* * * *
774294 TTTGAAAACATCTTGCACTGAAGGGATTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
774339 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
*
774384 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCAGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
** *
774429 TTTGAAAACATCATAAACTGAAGGGCTTACAGATGACCCGGAGGC
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
* * *
774474 TTTGAAAACATCAAGCACTGTAGGTCTTATAGATGACCCGGAGG
1 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGG
774518 TTTTAAATAT
Statistics
Matches: 285, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
44 1 0.00
45 282 0.99
46 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGGAGGC
Found at i:776786 original size:75 final size:75
Alignment explanation
Indices: 776614--776786 Score: 217
Period size: 75 Copynumber: 2.3 Consensus size: 75
776604 GACATGAGTC
* *
776614 TTCAGCATGCCCTAACATTTGCTAATACAAACGTTCAAAATGAGTTAATATTCCAATTTCTGATT
1 TTCAGCATGCCCTAACATTTGTTAATACAAACGTTCAAAATGAGTTAATATTCCAATTTATGATT
776679 GAAATGGACT
66 GAAATGGACT
* * * *
776689 TTCAGCATGCCCCATCACTTGTTGATACAAACGTTCAAAAT-A-TATCAATATTCCTAA-TTATG
1 TTCAGCATGCCCTAACATTTGTTAATACAAACGTTCAAAATGAGT-T-AATATTCC-AATTTATG
**
776751 ATTGAAATGGGGT
63 ATTGAAATGGACT
*
776764 TTCAGCATGCCCTAGCATTTGTT
1 TTCAGCATGCCCTAACATTTGTT
776787 TTTTTATTGA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
73 1 0.01
74 2 0.02
75 79 0.94
76 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (75 bp):
TTCAGCATGCCCTAACATTTGTTAATACAAACGTTCAAAATGAGTTAATATTCCAATTTATGATT
GAAATGGACT
Done.