Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007768.1 Hibiscus syriacus cultivar Beakdansim tig00110044_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: 2539099
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:681809 original size:12 final size:13
Alignment explanation
Indices: 681779--681808 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
681769 GTTTATATTT
681779 TTTTTAAAAAATA
1 TTTTTAAAAAATA
*
681792 TTTTTAAATAATA
1 TTTTTAAAAAATA
681805 TTTT
1 TTTT
681809 ATTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTTAAAAAATA
Found at i:681810 original size:36 final size:35
Alignment explanation
Indices: 681745--681814 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 35
681735 ATTTTTACCG
* *
681745 TTTAAAAAATTTGTTAAGTGATATGTTTATATTTTT
1 TTTAAAAAATTTGTTAAATAATATGTTTAT-TTTTT
*
681781 TTTAAAAAATATTTTTAAATAATAT-TTTATTTTT
1 TTTAAAAAAT-TTGTTAAATAATATGTTTATTTTT
681815 AAAAATCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 4 0.13
36 15 0.50
37 11 0.37
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (35 bp):
TTTAAAAAATTTGTTAAATAATATGTTTATTTTTT
Found at i:686478 original size:16 final size:16
Alignment explanation
Indices: 686459--686501 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
686449 CGAATACTAG
686459 TCAAACCGAAAGCAAC
1 TCAAACCGAAAGCAAC
* *
686475 TCAAACCAAAAACAAC
1 TCAAACCGAAAGCAAC
*
686491 -CGAACCGAAAG
1 TCAAACCGAAAG
686502 TAATCCAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.53, C:0.30, G:0.12, T:0.05
Consensus pattern (16 bp):
TCAAACCGAAAGCAAC
Found at i:686730 original size:26 final size:27
Alignment explanation
Indices: 686701--686751 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
686691 TTATTTGTAT
* * *
686701 TAATTAGATATCTAA-ATTTAAATAGC
1 TAATTAAATATATAACAATTAAATAGC
686727 TAATTAAATATATAACAATTAAATA
1 TAATTAAATATATAACAATTAAATA
686752 AATCTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (27 bp):
TAATTAAATATATAACAATTAAATAGC
Found at i:687311 original size:25 final size:24
Alignment explanation
Indices: 687283--687344 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
687273 TATTTTCATT
687283 TAATATTAAAATATTATCTATAATA
1 TAATATTAAAATATTATCTATAA-A
* * *
687308 TAATAATATAATATTATTTATAAA
1 TAATATTAAAATATTATCTATAAA
687332 T-ATATTTAAAATA
1 TAATA-TTAAAATA
687345 ATATTTATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 3 0.10
24 8 0.26
25 20 0.65
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATATTAAAATATTATCTATAAA
Found at i:702676 original size:20 final size:20
Alignment explanation
Indices: 702651--702689 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
702641 CTAAAAACTT
702651 AAAA-TTATCATAAATTTTTA
1 AAAATTTATCAT-AATTTTTA
*
702671 AAAATTTATGATAATTTTT
1 AAAATTTATCATAATTTTT
702690 CTATTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
AAAATTTATCATAATTTTTA
Found at i:714030 original size:2 final size:2
Alignment explanation
Indices: 714023--714066 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
714013 GCTAATATGA
714023 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
714065 AT
1 AT
714067 TCCATCTGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:716423 original size:29 final size:29
Alignment explanation
Indices: 716381--716467 Score: 156
Period size: 29 Copynumber: 3.0 Consensus size: 29
716371 CTCGGTTCCA
716381 CCATCTTGAAAGCTATGCCTATGTATTAT
1 CCATCTTGAAAGCTATGCCTATGTATTAT
716410 CCATCTTGAAAGCTATGCCTATGTATTAT
1 CCATCTTGAAAGCTATGCCTATGTATTAT
* *
716439 CCATCTTGAAAGTTATGCCTCTGTATTAT
1 CCATCTTGAAAGCTATGCCTATGTATTAT
716468 GATCTCTTGC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (29 bp):
CCATCTTGAAAGCTATGCCTATGTATTAT
Found at i:726471 original size:2 final size:2
Alignment explanation
Indices: 726464--726488 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
726454 TTTAATAAGA
726464 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 A
726489 ATTAAAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:728116 original size:16 final size:16
Alignment explanation
Indices: 728097--728143 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
728087 TTTTATTTGT
728097 AATAATTTTTTAATAA
1 AATAATTTTTTAATAA
*
728113 AATAATTATTATAATTAA
1 AATAATT-TTTTAA-TAA
*
728131 AAT-ATTCTTTAAT
1 AATAATTTTTTAAT
728144 TGTTTGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.04
16 11 0.42
17 8 0.31
18 6 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAATTTTTTAATAA
Found at i:728163 original size:48 final size:43
Alignment explanation
Indices: 728109--728197 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 43
728099 TAATTTTTTA
*
728109 ATAAAATAATTATTATAATTAAAATATTCTTTAATTGTTTGAAATATT
1 ATAAAATAA-TATT-TAATTAAAATA-T-TTTAATTATTT-AAATATT
*
728157 ATAAAATAATATTTATTTAAAATATTTTAATTATTTAAATA
1 ATAAAATAATATTTAATTAAAATATTTTAATTATTTAAATA
728198 ATAAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
43 5 0.13
44 10 0.26
45 1 0.03
46 10 0.26
47 4 0.10
48 9 0.23
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (43 bp):
ATAAAATAATATTTAATTAAAATATTTTAATTATTTAAATATT
Found at i:731442 original size:30 final size:29
Alignment explanation
Indices: 731407--731464 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
731397 ATTAACTGCA
*
731407 GGTGGTTTGATTGA-ATCAATTAAATAGTTT
1 GGTGGTCTGATTGAGA-CAA-TAAATAGTTT
731437 GGTGGTCTGATTGAGACAATAAATAGTT
1 GGTGGTCTGATTGAGACAATAAATAGTT
731465 CAGTGGTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 16 0.62
31 1 0.04
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (29 bp):
GGTGGTCTGATTGAGACAATAAATAGTTT
Found at i:731470 original size:29 final size:30
Alignment explanation
Indices: 731408--731472 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
731398 TTAACTGCAG
* **
731408 GTGGTTTGATTGAATCAATTAAATAGTTTG
1 GTGGTCTGATTGAATCAATTAAATAGTTCA
731438 GTGGTCTGATTGAGA-CAA-TAAATAGTTCA
1 GTGGTCTGATTGA-ATCAATTAAATAGTTCA
731467 GTGGTC
1 GTGGTC
731473 ACATTGACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 15 0.48
30 15 0.48
31 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (30 bp):
GTGGTCTGATTGAATCAATTAAATAGTTCA
Found at i:732556 original size:19 final size:18
Alignment explanation
Indices: 732524--732591 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
732514 TTTAATGAAA
732524 AACCGAAAAACCGAACCG
1 AACCGAAAAACCGAACCG
*
732542 AACCGTAAAACCCGAACCG
1 AACCG-AAAAACCGAACCG
732561 TTAA---AAAAACCGAACCG
1 --AACCGAAAAACCGAACCG
732578 AACCGATAAAACCG
1 AACCGA-AAAACCG
732592 GTTTTAGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.05
17 12 0.29
18 6 0.15
19 19 0.46
21 2 0.05
ACGTcount: A:0.49, C:0.31, G:0.15, T:0.06
Consensus pattern (18 bp):
AACCGAAAAACCGAACCG
Found at i:747334 original size:28 final size:28
Alignment explanation
Indices: 747294--747353 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
747284 AACAGAAAGC
747294 CAACCATACTCCAAATTCAATAATAAGA
1 CAACCATACTCCAAATTCAATAATAAGA
747322 CAACCATACTCCAAATTCAATAATAAGA
1 CAACCATACTCCAAATTCAATAATAAGA
747350 CAAC
1 CAAC
747354 AATCATCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (28 bp):
CAACCATACTCCAAATTCAATAATAAGA
Found at i:748104 original size:28 final size:28
Alignment explanation
Indices: 748064--748131 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
748054 CACGGGCGTA
*
748064 CATATACACACACAAGTGTGAGTGCGCG
1 CATACACACACACAAGTGTGAGTGCGCG
748092 CATACACACACACAAGTGTGAGTGCGCG
1 CATACACACACACAAGTGTGAGTGCGCG
748120 CATACACACACA
1 CATACACACACA
748132 TATATAACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.35, C:0.29, G:0.21, T:0.15
Consensus pattern (28 bp):
CATACACACACACAAGTGTGAGTGCGCG
Found at i:749671 original size:30 final size:30
Alignment explanation
Indices: 749635--749691 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
749625 AAATTTAAAG
*
749635 TGTTTAGTA-TCTAAACTATCAGTTTTGGTC
1 TGTTTAGTACT-TAAAATATCAGTTTTGGTC
749665 TGTTTAGTACTTAAAATATCAGTTTTG
1 TGTTTAGTACTTAAAATATCAGTTTTG
749692 ATCCATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (30 bp):
TGTTTAGTACTTAAAATATCAGTTTTGGTC
Found at i:749712 original size:30 final size:29
Alignment explanation
Indices: 749635--749712 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 29
749625 AAATTTAAAG
* *
749635 TGTTTAGTATCTAAACTATCAGTTTTGGTC
1 TGTTTAGTACCTAAA-TATCAGTTTTGATC
*
749665 TGTTTAGTACTTAAAATATCAGTTTTGATCC
1 TGTTTAGTACCT-AAATATCAGTTTTGAT-C
749696 AT-TTTAGTACCTAAATA
1 -TGTTTAGTACCTAAATA
749713 AACTTTCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 27 0.66
31 13 0.32
32 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (29 bp):
TGTTTAGTACCTAAATATCAGTTTTGATC
Found at i:764219 original size:19 final size:16
Alignment explanation
Indices: 764181--764237 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
764171 CTTTCATGTC
764181 TTTTTTTTTCGAACAG
1 TTTTTTTTTCGAACAG
*
764197 TTTTTTTTTCGAACTG
1 TTTTTTTTTCGAACAG
764213 CTATTTTGTTTTC-AACA-
1 -T-TTTT-TTTTCGAACAG
764230 TTTTTTTT
1 TTTTTTTT
764238 GTGATGGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 3 0.08
15 4 0.11
16 16 0.44
17 1 0.03
18 7 0.19
19 5 0.14
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.63
Consensus pattern (16 bp):
TTTTTTTTTCGAACAG
Found at i:765102 original size:18 final size:17
Alignment explanation
Indices: 765071--765105 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
765061 TGCTTAATCG
*
765071 GAAAAAAAATAATAAAA
1 GAAAAAAAAAAATAAAA
765088 GAAAAAATAAAAATAAAA
1 GAAAAAA-AAAAATAAAA
765106 ATATAACGGA
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:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (17 bp):
GAAAAAAAAAAATAAAA
Found at i:776530 original size:448 final size:441
Alignment explanation
Indices: 775703--776559 Score: 1430
Period size: 448 Copynumber: 1.9 Consensus size: 441
775693 AGAAGAATTA
*
775703 TTTTCAAGAAGATAAATAGCATACCTAAAAATCAGTCTTATCGGAGGATCATCACAAGAGAATGA
1 TTTTCAAGAAGATAAATAGCATACATAAAAATCAGTCTTATCGGAGGATCATCACAAGAGAATGA
* * *
775768 GCTTTAGGGTGCCAAACTTTTAGATGATTTTTTAACGATTCTAAGTAAGTTTCATGGAAAATCAA
66 GCTTTAGAGTGCCAAACTTTTAGATGAATTTTTAACGATTCTAAGTAAGTTTCATGAAAAATCAA
* *
775833 TTCGAGAAGAATGAGTGAAATATGAATGTTTTGATGTCGATGTTATCATAAATATGACAATTGAC
131 TTCGAGAAAAATGAGTGAAATATGAATGTTTTGATGTCGATGTTATCACAAATATGACAATTGAC
* * * *
775898 TAGTAATAACAACCGAAGGAGTTGACAATTCTCTACATAAAATTTGGAAAAGAACGATTATGTCT
196 TAGTAATAACAACCAAAAGAGTTGACAATTCTCTACATAAAATCTGGAAAAGAACGATCATGTCT
775963 TCATGTTGTTAACGATTCAACGACCCAGTGATAAAAAAACTATGTTAAAGTTTATTGCTAAAATA
261 TCATGTTGTTAACGATTCAACGACCCAGTGATAAAAAAACTATGTTAAAGTTTATTGCTAAAATA
* *
776028 GAAGTGTTTTTAAATATAACGATGAAATCAATAAACAAACTAAAATTCTGTGACTAA-TGAGATA
326 AAAGTGTTTTAAAATATAACGATGAAATCAATAAACAAACTAAAATTCTGTGACTAATTGAGATA
776092 ATATATATATATATATATACCTATTAAAAATAAATAATTAATGATTCATTT
391 ATATATATATATATATATACCTATTAAAAATAAATAATTAATGATTCATTT
776143 TTTTCAAGAAGATAAATAGCATACATAAAAATCAGTCTTATCGGAGGATCATCACAAGAGAATGA
1 TTTTCAAGAAGATAAATAGCATACATAAAAATCAGTCTTATCGGAGGATCATCACAAGAGAATG-
* *
776208 AGCTTTAGAGTGTCAAACTTTTAGATGAATTTTTAACGATTCTAA-TCAAGTTTCGTGAAAAATC
65 AGCTTTAGAGTGCCAAACTTTTAGATGAATTTTTAACGATTCTAAGT-AAGTTTCATGAAAAATC
* * * * *
776272 AATTCTAGAAAAATTAGTGAAATATGAATGTTTTGGTGTCGATGTTGTCGCAAATATGATCAGTA
129 AATTCGAGAAAAATGAGTGAAATATGAATGTTTTGATGTCGATGTTATCACAAATATGA-C----
776337 ACGATTGACTAGTAATAACAACCAAAAGAGTTGACAATTCTCTACATAAAATCTGGAAAAGAACG
189 A--ATTGACTAGTAATAACAACCAAAAGAGTTGACAATTCTCTACATAAAATCTGGAAAAGAACG
776402 ATCATGTCTTCATGTTGTTAACGATTCAACGACCCAGTGATAAAAAAACTATGTTAAAGTTTATT
252 ATCATGTCTTCATGTTGTTAACGATTCAACGACCCAGTGATAAAAAAACTATGTTAAAGTTTATT
* *
776467 GCTAAAATAAAAGTGTTTTAAAATATAATGATGAAATCAATAAACAAACTAAAATTTTGTGACTA
317 GCTAAAATAAAAGTGTTTTAAAATATAACGATGAAATCAATAAACAAACTAAAATTCTGTGACTA
776532 ATTGAGATAATATATATATATATATATA
382 ATTGAGATAATATATATATATATATATA
776560 TATATATATA
Statistics
Matches: 386, Mismatches: 21, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
440 64 0.17
441 109 0.28
442 1 0.00
446 1 0.00
448 185 0.48
449 26 0.07
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.32
Consensus pattern (441 bp):
TTTTCAAGAAGATAAATAGCATACATAAAAATCAGTCTTATCGGAGGATCATCACAAGAGAATGA
GCTTTAGAGTGCCAAACTTTTAGATGAATTTTTAACGATTCTAAGTAAGTTTCATGAAAAATCAA
TTCGAGAAAAATGAGTGAAATATGAATGTTTTGATGTCGATGTTATCACAAATATGACAATTGAC
TAGTAATAACAACCAAAAGAGTTGACAATTCTCTACATAAAATCTGGAAAAGAACGATCATGTCT
TCATGTTGTTAACGATTCAACGACCCAGTGATAAAAAAACTATGTTAAAGTTTATTGCTAAAATA
AAAGTGTTTTAAAATATAACGATGAAATCAATAAACAAACTAAAATTCTGTGACTAATTGAGATA
ATATATATATATATATATACCTATTAAAAATAAATAATTAATGATTCATTT
Found at i:776548 original size:2 final size:2
Alignment explanation
Indices: 776541--776578 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
776531 AATTGAGATA
776541 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
776579 CCCTCATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:785954 original size:10 final size:10
Alignment explanation
Indices: 785912--785963 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
785902 GTTGGAAACT
785912 GGTTTTGACC
1 GGTTTTGACC
*
785922 GG-TTTAACC
1 GGTTTTGACC
785931 GGTTTTGAACC
1 GGTTTTG-ACC
785942 GGTTTTGACC
1 GGTTTTGACC
785952 GG-TTTGACC
1 GGTTTTGACC
785961 GGT
1 GGT
785964 CACGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 17 0.46
10 10 0.27
11 10 0.27
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (10 bp):
GGTTTTGACC
Found at i:785993 original size:18 final size:18
Alignment explanation
Indices: 785966--786019 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
785956 TGACCGGTCA
785966 CGACCCGTTTACCCGACC
1 CGACCCGTTTACCCGACC
*
785984 CGACCAGTTTACCCGACC
1 CGACCCGTTTACCCGACC
786002 CGACCCGTTTACCCGACC
1 CGACCCGTTTACCCGACC
786020 GTTGACCCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.19, C:0.48, G:0.17, T:0.17
Consensus pattern (18 bp):
CGACCCGTTTACCCGACC
Found at i:786015 original size:13 final size:13
Alignment explanation
Indices: 785998--786039 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
785988 CAGTTTACCC
785998 GACCCGACCCGTT
1 GACCCGACCCGTT
*
786011 TACCCGA-CCGTT
1 GACCCGACCCGTT
786023 GACCCGACCCGTT
1 GACCCGACCCGTT
786036 GACC
1 GACC
786040 GTTGACCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:786115 original size:29 final size:29
Alignment explanation
Indices: 786054--786120 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
786044 ACCGTTGACC
* *** *
786054 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGAGAATTAATTCGAAATG
786083 GGTGCTATTCTGAGAATTAATTCGAAATG
1 GGTGCTATTCTGAGAATTAATTCGAAATG
786112 GGTGCTATT
1 GGTGCTATT
786121 TTAGTAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.40
Consensus pattern (29 bp):
GGTGCTATTCTGAGAATTAATTCGAAATG
Found at i:786129 original size:29 final size:28
Alignment explanation
Indices: 786054--786137 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
786044 ACCGTTGACC
* *** *
786054 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGAGAATT-ATTCGAAATG
786083 GGTGCTATTCTGAGAATTAATTCGAAATG
1 GGTGCTATTCTGAGAATT-ATTCGAAATG
* *
786112 GGTGCTATT-TTAGTAATTTTTCGAAA
1 GGTGCTATTCTGAG-AATTATTCGAAA
786138 AAAAATAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
28 10 0.21
29 37 0.79
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.42
Consensus pattern (28 bp):
GGTGCTATTCTGAGAATTATTCGAAATG
Found at i:793277 original size:10 final size:10
Alignment explanation
Indices: 793235--793286 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
793225 GTTGGAAACT
793235 GGTTTTGACC
1 GGTTTTGACC
*
793245 GG-TTTAACC
1 GGTTTTGACC
793254 GGTTTTGAACC
1 GGTTTTG-ACC
793265 GGTTTTGACC
1 GGTTTTGACC
793275 GG-TTTGACC
1 GGTTTTGACC
793284 GGT
1 GGT
793287 CACGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 17 0.46
10 10 0.27
11 10 0.27
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (10 bp):
GGTTTTGACC
Found at i:793316 original size:18 final size:18
Alignment explanation
Indices: 793289--793342 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
793279 TGACCGGTCA
793289 CGACCCGTTTACCCGACC
1 CGACCCGTTTACCCGACC
*
793307 CGACCAGTTTACCCGACC
1 CGACCCGTTTACCCGACC
793325 CGACCCGTTTACCCGACC
1 CGACCCGTTTACCCGACC
793343 GTTGACCCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.19, C:0.48, G:0.17, T:0.17
Consensus pattern (18 bp):
CGACCCGTTTACCCGACC
Found at i:793350 original size:12 final size:13
Alignment explanation
Indices: 793321--793362 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
793311 CAGTTTACCC
793321 GACCCGACCCGTT
1 GACCCGACCCGTT
*
793334 TACCCGA-CCGTT
1 GACCCGACCCGTT
793346 GACCCGACCCGTT
1 GACCCGACCCGTT
793359 GACC
1 GACC
793363 GTTGATCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:793438 original size:29 final size:29
Alignment explanation
Indices: 793377--793443 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
793367 ATCGTTGACT
* *** *
793377 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGAGAATTAATTCGAAATG
793406 GGTGCTATTCTGAGAATTAATTCGAAATG
1 GGTGCTATTCTGAGAATTAATTCGAAATG
793435 GGTGCTATT
1 GGTGCTATT
793444 TTAGTAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.40
Consensus pattern (29 bp):
GGTGCTATTCTGAGAATTAATTCGAAATG
Found at i:793452 original size:29 final size:28
Alignment explanation
Indices: 793377--793460 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
793367 ATCGTTGACT
* *** *
793377 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGAGAATT-ATTCGAAATG
793406 GGTGCTATTCTGAGAATTAATTCGAAATG
1 GGTGCTATTCTGAGAATT-ATTCGAAATG
* *
793435 GGTGCTATT-TTAGTAATTTTTCGAAA
1 GGTGCTATTCTGAG-AATTATTCGAAA
793461 AAAAATAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
28 10 0.21
29 37 0.79
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.42
Consensus pattern (28 bp):
GGTGCTATTCTGAGAATTATTCGAAATG
Found at i:796357 original size:2 final size:2
Alignment explanation
Indices: 796350--796390 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
796340 AGTAAAAATT
796350 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
796391 AATCTTCCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:803641 original size:4 final size:4
Alignment explanation
Indices: 803634--803659 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
803624 TCTCTTTTGG
803634 TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TG
803660 GTTTTACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:817123 original size:2 final size:2
Alignment explanation
Indices: 817116--817178 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
817106 GCTGCGTTTC
817116 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
817158 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
817179 GTAAGTTTCC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:817380 original size:2 final size:2
Alignment explanation
Indices: 817373--817398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
817363 TGTGTATCAA
817373 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
817399 TAGTAAGTTT
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:819724 original size:15 final size:15
Alignment explanation
Indices: 819701--819770 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
819691 CCCATTGCAA
819701 CTGTAGCTGCAATTG
1 CTGTAGCTGCAATTG
* *
819716 CTGTTGCTGCAGTTG
1 CTGTAGCTGCAATTG
* *
819731 CCT-TCA-TTGCATTTG
1 -CTGT-AGCTGCAATTG
*
819746 CTGCAGCTGCAATTG
1 CTGTAGCTGCAATTG
*
819761 CTGTATCTGC
1 CTGTAGCTGC
819771 TGTTGGGGAA
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
14 3 0.07
15 36 0.88
16 2 0.05
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.37
Consensus pattern (15 bp):
CTGTAGCTGCAATTG
Found at i:819739 original size:42 final size:43
Alignment explanation
Indices: 819670--819764 Score: 113
Period size: 42 Copynumber: 2.2 Consensus size: 43
819660 ATAAGCCGCC
* *
819670 ATTGTTGTTGCTGCAGTTGCTCCCATTGCA-ACTGTAGCTGCA
1 ATTGCTGTTGCTGCAGTTGCTCCCATTGCATACTGCAGCTGCA
* *
819712 ATTGCTGTTGCTGCAGTTGC-CTTCATTGCATTTGCTGCAGCTGCA
1 ATTGCTGTTGCTGCAGTTGCTC-CCATTGCA--TACTGCAGCTGCA
819757 ATTGCTGT
1 ATTGCTGT
819765 ATCTGCTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
41 1 0.02
42 26 0.58
45 18 0.40
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (43 bp):
ATTGCTGTTGCTGCAGTTGCTCCCATTGCATACTGCAGCTGCA
Found at i:820664 original size:12 final size:12
Alignment explanation
Indices: 820639--820693 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
820629 AGGTGAAAAC
*
820639 ATAT-ATATATA
1 ATATAATATAAA
820650 ATATAATATAAA
1 ATATAATATAAA
820662 ATATAATAT--A
1 ATATAATATAAA
* *
820672 ATATAATACATA
1 ATATAATATAAA
820684 ATA-AATATAA
1 ATATAATATAA
820694 TAGATATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
10 9 0.24
11 9 0.24
12 19 0.51
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
ATATAATATAAA
Found at i:820667 original size:17 final size:17
Alignment explanation
Indices: 820645--820693 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
820635 AAACATATAT
820645 ATATAATATAATATAAA
1 ATATAATATAATATAAA
*
820662 ATATAATATAATATAAT
1 ATATAATATAATATAAA
*
820679 ACATAATA-AATATAA
1 ATATAATATAATATAA
820694 TAGATATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.23
17 23 0.77
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATAATATAATATAAA
Found at i:820732 original size:44 final size:45
Alignment explanation
Indices: 820682--820767 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
820672 ATATAATACA
* * * *
820682 TAATAAATATAATAGATATA-AAAACATATATATATATATATTAT
1 TAATAAATATAAAAGATATACAAAACAGAAATATAAATATATTAT
820726 TAATAAATATAAAAGATATACAAAACAGAAATATAAATATAT
1 TAATAAATATAAAAGATATACAAAACAGAAATATAAATATAT
820768 ATAGAAACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 19 0.51
45 18 0.49
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (45 bp):
TAATAAATATAAAAGATATACAAAACAGAAATATAAATATATTAT
Found at i:820833 original size:14 final size:14
Alignment explanation
Indices: 820814--820840 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
820804 AAAAATAATA
820814 AAAATAATAATTTG
1 AAAATAATAATTTG
820828 AAAATAATAATTT
1 AAAATAATAATTT
820841 AAATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAATAATAATTTG
Found at i:821960 original size:141 final size:136
Alignment explanation
Indices: 821711--821989 Score: 414
Period size: 141 Copynumber: 2.0 Consensus size: 136
821701 AATGGCAAAG
* * * *
821711 CTGTCTGAGCATAAGTTGTGTACCTTGGCTTTTGGTGCAATCTTCAGCAGAATCGGTTTTTCGAC
1 CTGTCTGACCATAAGTTGTGTACCTTGGCTTTTGGTACAACCTTCAGCAGAACCGGTTTTTCGAC
* *
821776 CCTTTGAATGAAAGGCAGGCGGGTCGAAGAACCAGTTCTTTTATCATGGTTCTTCAGTATTTTCA
66 CCTTTGAATGAAAGGCAAGCAGGTCGAAGAACCAGTTCTTTTATCATGGTTCTTCAGTATTTTCA
821841 CCAATC
131 CCAATC
*
821847 CTGTCTGACCATAAGTTGTGTACCTTGGCTTTGCTTTTGGTACAACCTTCAGTAGAACCGGTTTT
1 CTGTCTGACCATAAGTTGTGTACCTT-G----GCTTTTGGTACAACCTTCAGCAGAACCGGTTTT
* * * *
821912 TCGACCCTTTGAATGAAAGGCAAGTAGGTCGAAGAACCGGTTCTTTTATCATTGTTCTTCGGTAT
61 TCGACCCTTTGAATGAAAGGCAAGCAGGTCGAAGAACCAGTTCTTTTATCATGGTTCTTCAGTAT
821977 TTTCACCAATC
126 TTTCACCAATC
821988 CT
1 CT
821990 ATTGATAGCA
Statistics
Matches: 127, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
136 25 0.20
137 1 0.01
141 101 0.80
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (136 bp):
CTGTCTGACCATAAGTTGTGTACCTTGGCTTTTGGTACAACCTTCAGCAGAACCGGTTTTTCGAC
CCTTTGAATGAAAGGCAAGCAGGTCGAAGAACCAGTTCTTTTATCATGGTTCTTCAGTATTTTCA
CCAATC
Found at i:825669 original size:60 final size:60
Alignment explanation
Indices: 825485--825672 Score: 170
Period size: 60 Copynumber: 3.1 Consensus size: 60
825475 TTTAGACGAA
* * * * * *
825485 TTTGAGGATGAAATCATAATATTCAAAAGTTTTGGGACTAATTTAGAAATATGG-TAGTTG
1 TTTGAGGATGAAATTAGAATATTCAAAAGTTTTAGGACTAATTTAAAAATAAGGTTA-TAG
* * * * *
825545 TTT-AGAGACGAAATTAGAATATTCAAAAGTTTTAGGACT-ATCTT-AGAATGAGAGTCATAA
1 TTTGAG-GATGAAATTAGAATATTCAAAAGTTTTAGGACTAAT-TTAAAAATAAG-GTTATAG
* * *
825605 TTTGAGGATGAAATT-GAAATATTCAAAAGTTTAAGGATTAATTTAAAAATAAGGTTACAG
1 TTTGAGGATGAAATTAG-AATATTCAAAAGTTTTAGGACTAATTTAAAAATAAGGTTATAG
825665 TTTGAGGA
1 TTTGAGGA
825673 CATATGACAT
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
59 9 0.09
60 81 0.80
61 11 0.11
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.34
Consensus pattern (60 bp):
TTTGAGGATGAAATTAGAATATTCAAAAGTTTTAGGACTAATTTAAAAATAAGGTTATAG
Found at i:829107 original size:2 final size:2
Alignment explanation
Indices: 829100--829127 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
829090 ACCTATTTGA
829100 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
829128 GGACCGAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:830264 original size:2 final size:2
Alignment explanation
Indices: 830257--830305 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
830247 ATGTATTCAT
830257 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
830299 TA TA TA T
1 TA TA TA T
830306 TTTAGATTGT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:831215 original size:71 final size:71
Alignment explanation
Indices: 831099--831240 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
831089 TGCATGAGAG
*
831099 ATTGCTTGTCTTGGTCTACACCATCAATGGTCCAAATTATTGCAACTTAATCATGATGATTGATG
1 ATTGCTTGTCTTGGTCTACACCATCAATGGTCCAAATTATTGCAACTTAATCATGATGATTGACG
831164 AAATGT
66 AAATGT
831170 ATTGCTTGTCTTGGTCTACACCATCAATGGTCCAAATTATTGCAACTTAATCATGATGATTGACG
1 ATTGCTTGTCTTGGTCTACACCATCAATGGTCCAAATTATTGCAACTTAATCATGATGATTGACG
831235 AAATGT
66 AAATGT
831241 TTTCACCTTC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (71 bp):
ATTGCTTGTCTTGGTCTACACCATCAATGGTCCAAATTATTGCAACTTAATCATGATGATTGACG
AAATGT
Found at i:836999 original size:19 final size:19
Alignment explanation
Indices: 836975--837069 Score: 91
Period size: 19 Copynumber: 5.0 Consensus size: 19
836965 TATGCATTGG
*
836975 GCTATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
836994 GCTATGAATCTGACAGTAA
1 GCTATGAATCTGAAAATAA
* *
837013 GCTATGATTATGAAAATAA
1 GCTATGAATCTGAAAATAA
* * *
837032 GTTATAAATCTGGAAATAA
1 GCTATGAATCTGAAAATAA
* * *
837051 GTTATGATTCAGAAAATAA
1 GCTATGAATCTGAAAATAA
837070 ATTCTGAAAT
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 60 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (19 bp):
GCTATGAATCTGAAAATAA
Found at i:837027 original size:38 final size:38
Alignment explanation
Indices: 836975--837069 Score: 106
Period size: 38 Copynumber: 2.5 Consensus size: 38
836965 TATGCATTGG
* *
836975 GCTATGAATT-TGAAAATAAGCTATGAATCT-GACAGTAA
1 GCTATG-ATTATGAAAATAAGCTATAAATCTGGA-AATAA
*
837013 GCTATGATTATGAAAATAAGTTATAAATCTGGAAATAA
1 GCTATGATTATGAAAATAAGCTATAAATCTGGAAATAA
*
837051 GTTATGATTCA-GAAAATAA
1 GCTATGATT-ATGAAAATAA
837070 ATTCTGAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
37 3 0.06
38 44 0.88
39 3 0.06
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (38 bp):
GCTATGATTATGAAAATAAGCTATAAATCTGGAAATAA
Found at i:838206 original size:15 final size:15
Alignment explanation
Indices: 838188--838217 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
838178 TAATAAAAAA
*
838188 TTAATTAATTTGATT
1 TTAATCAATTTGATT
838203 TTAATCAATTTGATT
1 TTAATCAATTTGATT
838218 CGATTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (15 bp):
TTAATCAATTTGATT
Found at i:842068 original size:5 final size:5
Alignment explanation
Indices: 842058--842082 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
842048 TTTGATATCA
842058 CCCTG CCCTG CCCTG CCCTG CCCTG
1 CCCTG CCCTG CCCTG CCCTG CCCTG
842083 TGTCTGGCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.20, T:0.20
Consensus pattern (5 bp):
CCCTG
Found at i:843543 original size:182 final size:182
Alignment explanation
Indices: 843170--843543 Score: 583
Period size: 182 Copynumber: 2.1 Consensus size: 182
843160 TAAATTTTAA
* ** *
843170 ATATTAAATATAACATATGGGCTCAACCCAAATCATTAAAAACCCAATTAATAATTTAAGATCCA
1 ATATTATATATAACATATGGGCAAAACCCAAACCATTAAAAACCCAATTAATAATTTAAGATCCA
* **
843235 ATAACTTTTAAATTTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTTTATTTTATAAT
66 ATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAAATTTTATTTTATAAT
*
843300 TATATATTATTTAAATTAATTGTAAACTGTTTTTTAATTAAAAATATTAAAT
131 TATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAATATTAAAT
* *
843352 ATATTATATATAACATATGGGCAAAACCCAAACCATTTAAAACTCAATTAATAATTTAAGATCCA
1 ATATTATATATAACATATGGGCAAAACCCAAACCATTAAAAACCCAATTAATAATTTAAGATCCA
*
843417 ATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATCTAAAAATTTTATTTTATAA
66 ATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTATATAAAAATTTTATTTTATAA
* *
843482 TTATTTATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAAAAATATTTAAT
130 TTATATATTATTTAAATTAATTATAAACTGTTTTTT-AATT-AAAAATATTAAAT
843536 -T-TTATATA
1 ATATTATATA
843544 AATTAGAAAA
Statistics
Matches: 176, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
182 111 0.63
183 53 0.30
184 12 0.07
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (182 bp):
ATATTATATATAACATATGGGCAAAACCCAAACCATTAAAAACCCAATTAATAATTTAAGATCCA
ATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAAATTTTATTTTATAAT
TATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAAAATATTAAAT
Found at i:843680 original size:15 final size:15
Alignment explanation
Indices: 843660--843688 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
843650 AAAAAAAAAT
843660 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
843675 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
843689 CGGTCGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:843978 original size:3 final size:3
Alignment explanation
Indices: 843970--843997 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
843960 GTAACATTGC
843970 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
843998 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:848577 original size:28 final size:28
Alignment explanation
Indices: 848544--848598 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
848534 AACTACACTT
848544 GATACACTTGTCTTAAAAGAATAGAAAC
1 GATACACTTGTCTTAAAAGAATAGAAAC
848572 GATACACTTGTCTTAAAAGAATAGAAA
1 GATACACTTGTCTTAAAAGAATAGAAA
848599 GAAGGTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (28 bp):
GATACACTTGTCTTAAAAGAATAGAAAC
Found at i:854860 original size:21 final size:21
Alignment explanation
Indices: 854834--854878 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
854824 CCGGTTACAC
* *
854834 CCGCAATAGCGCCCGTGACGG
1 CCGCAATAGCCCCCGCGACGG
854855 CCGCAATAGCCCCCGCGACGG
1 CCGCAATAGCCCCCGCGACGG
854876 CCG
1 CCG
854879 TAATCTCGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.44, G:0.31, T:0.07
Consensus pattern (21 bp):
CCGCAATAGCCCCCGCGACGG
Found at i:855209 original size:172 final size:168
Alignment explanation
Indices: 854920--855261 Score: 596
Period size: 172 Copynumber: 2.0 Consensus size: 168
854910 CATTAAGAAT
*
854920 TTCCATCTTCTCCTACCATCCCTACAAATGAATGCTGACGAGGAATGCCAGAATCAACTACCTAT
1 TTCCAGCTTCTCCTACCATCCCTACAAATGAATGCTGACGAGGAATGCCAGAATCAACTACCTAT
854985 ATAAAAAAAAACACCCTAATGAAAGGGACAAAGAACTATAACATTTGTTAATGCTGCATGATTTT
66 ATAAAAAAAAACACCCTAATGAAAGGGAC-AAGAACTATAACATTTGTTAATGCTGCATGATTTT
* *
855050 TGTAAGGCTGGTACCTTAATCCTGTAAAAGTTGGAAGGC
130 TGTAAGACTGGTACCTTAATCCTGTAAAAATTGGAAGGC
855089 TTCCAGCTTCTCCTACCATCCCTACAAAATGAATGCTGACGAGGAATGGCCAGAATCAACTACCT
1 TTCCAGCTTCTCCTACCATCCCTAC-AAATGAATGCTGACGAGGAAT-GCCAGAATCAACTACC-
855154 ATATATAAAAAAAAAACACCCTAATGAAAGGGAC-AGAACTATAACATTTGTTAATGCTGCATGA
63 -TATAT-AAAAAAAAACACCCTAATGAAAGGGACAAGAACTATAACATTTGTTAATGCTGCATGA
855218 TTTTTGTAAGACTGGTACCTTAATCCTGTAAAAATTGGAAGGC
126 TTTTTGTAAGACTGGTACCTTAATCCTGTAAAAATTGGAAGGC
855261 T
1 T
855262 GGATCCGCCA
Statistics
Matches: 165, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
169 24 0.15
170 21 0.13
171 16 0.10
172 72 0.44
173 5 0.03
174 27 0.16
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (168 bp):
TTCCAGCTTCTCCTACCATCCCTACAAATGAATGCTGACGAGGAATGCCAGAATCAACTACCTAT
ATAAAAAAAAACACCCTAATGAAAGGGACAAGAACTATAACATTTGTTAATGCTGCATGATTTTT
GTAAGACTGGTACCTTAATCCTGTAAAAATTGGAAGGC
Found at i:859764 original size:277 final size:271
Alignment explanation
Indices: 858967--860308 Score: 1556
Period size: 271 Copynumber: 4.9 Consensus size: 271
858957 TAGGGTTGGA
* * *
858967 CCAAAAAAGATTTCAAGAAACATAAAGGAAGAATAACAAAGTTTAAAAATGACATCAGGAAAGCC
1 CCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATCAAGAAAGCC
* *
859032 TTTAGTCAAACCTAAGA-TCTTATTTGAAGCAACAAATGTTTAAGAATACCTTCAGCTGCTCATT
66 TTTAGTCAAACCTAAGATTCTTATTTGAAGCAACAAATGTCTAAAAATACCTTCAGCTGCTCATT
* * ** * * **
859096 TTCAGCAGTA-ATTTCTTTCATCAATTCACTGTCAATAACGGGGATCTCCTTAATTATAGGAACT
131 TTCAGCAGTAGGTTT-ATTCATCAATTCGTTGTCAATAAC-GGGATCTCCTGAACTGCAGGAACT
* * * * *
859160 AGTTCAGTAATGCTT-TTTGT-AGCTTCTTGTTCCTCAACTAGTAACTCTTTTGTTTCTTGAACC
194 TGTTCAGCAATG-TTCTTT-TCAGCTTCATGTTCCTCAACTAGTAACTCCTTTGTTTCCTGAACC
*
859223 TACAATGGCATTGTC
257 TACAATGGCATTGTG
*
859238 CCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATAACATCAAGAAAGCC
1 CCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATCAAGAAAGCC
* * ** *
859303 TTTAGTCAAATCTAAGA-TCTTATTTGAAGCAACAGATGGGTAAAAATACCTTTAGCTGCTCATT
66 TTTAGTCAAACCTAAGATTCTTATTTGAAGCAACAAATGTCTAAAAATACCTTCAGCTGCTCATT
* * * * *
859367 TTCAGCAGTTGGTTTATTCATCAATTCGTTTTCAATGACGGAGCTCTCCTGAACTGCAAGAACTT
131 TTCAGCAGTAGGTTTATTCATCAATTCGTTGTCAATAACGG-GATCTCCTGAACTGCAGGAACTT
*
859432 GTTCAGCAATGTTCTTTGCAGCTTCATGTTCCTCAACTAGTAACT-CTTGTGTTTCCTGAACCTA
195 GTTCAGCAATGTTCTTTTCAGCTTCATGTTCCTCAACTAGTAACTCCTT-TGTTTCCTGAACCTA
*
859496 CAATGCCATTGTG
259 CAATGGCATTGTG
*
859509 CCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACTAAGTTTAAAAATGACATCAAGAAAG-C
1 CCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATCAAGAAAGCC
* * * ** **
859573 TTCTAGTCAAACCTAAGATCTTGTTCTTATTCGGAGCAACAAATGCCTAGCAATACCTTTTGCTG
66 TT-TAGTCAAACCTAAGA-----TTCTTATTTGAAGCAACAAATGTCTAAAAATACCTTCAGCTG
* * * * * *
859638 CTCATTTTCAGCAGTAGGTTCATACAACAATTCGTTGCCAATAACGAGGTTCTCCTGAACCGCAG
125 CTCATTTTCAGCAGTAGGTTTATTCATCAATTCGTTGTCAATAACG-GGATCTCCTGAACTGCAG
** * *
859703 GAACTTGTTCAGCAATGTTCTTTTCAGCTTCACATTCCTGAACTAGTGACTCCTTTGTTTCCTGA
189 GAACTTGTTCAGCAATGTTCTTTTCAGCTTCATGTTCCTCAACTAGTAACTCCTTTGTTTCCTGA
859768 ACCTACAATGGCATTGTG
254 ACCTACAATGGCATTGTG
* * * *
859786 CGAAGCAAGATTTCAAGAAACATAAAGGAAGAACAACCAAGTTTAAAAATGACATCAAGACAG-C
1 CCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATCAAGAAAGCC
* * *
859850 TTCAAGTC-AACCTAAGA-TCTTATTTTTGCTCAAAGCAACAAATGTCTAACAATACCTTCGGCT
66 TT-TAGTCAAACCTAAGATTCTTA--TTTG----AAGCAACAAATGTCTAAAAATACCTTCAGCT
* * * *
859913 GCTCATTTTCAGTAGTAGGTTTACTCATCAATTCGTTGCCAATATCAGGG---TCCTGAACTGCA
124 GCTCATTTTCAGCAGTAGGTTTATTCATCAATTCGTTGTCAATAAC-GGGATCTCCTGAACTGCA
* * * * *
859975 TGAACTTGTTCAGCAATGCTCTTTTCGGCTTCAGGTTCCTCAACTAGTGACTCCTTTGTTTCCTG
188 GGAACTTGTTCAGCAATGTTCTTTTCAGCTTCATGTTCCTCAACTAGTAACTCCTTTGTTTCCTG
860040 AACCTACAATGGCATTGTG
253 AACCTACAATGGCATTGTG
* * *
860059 CCAAGCAAGATTTCAAGAAACAT--A--AAGAACAACCAAGTTTAAAAATGACATCGAGAAAGCC
1 CCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATCAAGAAAGCC
* *
860120 TTTAGTAAAACCTAATA-TCTTATTTGAAGCAACAAATGTCTAAAAATACCTTCAGCTGCTCATT
66 TTTAGTCAAACCTAAGATTCTTATTTGAAGCAACAAATGTCTAAAAATACCTTCAGCTGCTCATT
* * * * *
860184 TTCAGCAGTAAGTTTATTCATCAATTCATTGTCATTAGCTGGGATCTCCTTAA-T-CGAGGGAAC
131 TTCAGCAGTAGGTTTATTCATCAATTCGTTGTCAATAAC-GGGATCTCCTGAACTGC-A-GGAAC
* * ** * * * *
860247 TTGTTCAGCAATGCTCTTTGCAGCTTCGCGTTCTTTAACTAGCAAGT-CTTGTGTTTCCTGAA
193 TTGTTCAGCAATGTTCTTTTCAGCTTCATGTTCCTCAACTAGTAACTCCTT-TGTTTCCTGAA
860309 GCTGAAGTTG
Statistics
Matches: 932, Mismatches: 110, Indels: 62
0.84 0.10 0.06
Matches are distributed among these distances:
264 71 0.08
265 1 0.00
266 5 0.01
267 59 0.06
268 4 0.00
269 36 0.04
270 30 0.03
271 302 0.32
272 6 0.01
273 111 0.12
276 77 0.08
277 226 0.24
278 4 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (271 bp):
CCAAACAAGATTTCAAGAAACATAAAGGAAGAATAACCAAGTTTAAAAATGACATCAAGAAAGCC
TTTAGTCAAACCTAAGATTCTTATTTGAAGCAACAAATGTCTAAAAATACCTTCAGCTGCTCATT
TTCAGCAGTAGGTTTATTCATCAATTCGTTGTCAATAACGGGATCTCCTGAACTGCAGGAACTTG
TTCAGCAATGTTCTTTTCAGCTTCATGTTCCTCAACTAGTAACTCCTTTGTTTCCTGAACCTACA
ATGGCATTGTG
Found at i:860325 original size:21 final size:21
Alignment explanation
Indices: 860301--860340 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
860291 AGTCTTGTGT
* *
860301 TTCCTGAAGCTGAAGTTGCAG
1 TTCCTGAAACTCAAGTTGCAG
860322 TTCCTGAAACTCAAGTTGC
1 TTCCTGAAACTCAAGTTGC
860341 TTTTCATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
TTCCTGAAACTCAAGTTGCAG
Found at i:860462 original size:96 final size:96
Alignment explanation
Indices: 860285--860605 Score: 439
Period size: 96 Copynumber: 3.3 Consensus size: 96
860275 CGTTCTTTAA
* * * *
860285 CTAGCAAGTCTTGTGTTTCCTGAAGCTGAAGTTGCAGTTCCTGAAACTCAAGTTGCTT-TTCATT
1 CTAGCAACTCTTTTGTTTGCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTGCTTCTT--TT
*
860349 -CAAGGTAGATTCAAACCTTGCACTTTCCTGTT
64 GCAAAGTAGATTCAAACCTTGCACTTTCCTGTT
* ** *
860381 CTTGCAACTCTTTTGTTTGCTGAAGCTCAAGTTGCTTTTCCTGAAACTCAAGTTCCTTCTTTTGC
1 CTAGCAACTCTTTTGTTTGCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTGCTTCTTTTGC
** * * *
860446 AAAGTAGATTGTAACCTTTCAGTTTCCTGTG
66 AAAGTAGATTCAAACCTTGCACTTTCCTGTT
* * *
860477 CTAGCAACTCTTTTGATTGCTGAAGCTCAAGTTGCAGTTCATGAAACTCAAGTTGCTTCTTATGC
1 CTAGCAACTCTTTTGTTTGCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTGCTTCTTTTGC
*
860542 ATAGTAGATTCAAACCTTGCACTTTCCTGTT
66 AAAGTAGATTCAAACCTTGCACTTTCCTGTT
*
860573 CTAGCAACTCTTTTGTTTGCAGAAGCTCAAGTT
1 CTAGCAACTCTTTTGTTTGCTGAAGCTCAAGTT
860606 CCAAATTCTG
Statistics
Matches: 194, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
95 2 0.01
96 190 0.98
97 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (96 bp):
CTAGCAACTCTTTTGTTTGCTGAAGCTCAAGTTGCAGTTCCTGAAACTCAAGTTGCTTCTTTTGC
AAAGTAGATTCAAACCTTGCACTTTCCTGTT
Found at i:860903 original size:66 final size:66
Alignment explanation
Indices: 860826--861097 Score: 409
Period size: 66 Copynumber: 4.1 Consensus size: 66
860816 CTGTTTGCAG
* * * * * * *
860826 TTCCTGAAACTCAAGTTGCTTCTTTTGCATAGTAGATTCAAACCTTTCGCTTTCCTGTTTTTTAG
1 TTCCTCAAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTGG
860891 A
66 A
* *
860892 TTCCTCAAACTCAAGTTGCATCTTCTGCAAGGTAGATTCATACCTTGCACTTTCCTGTTTTTTGG
1 TTCCTCAAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTGG
860957 A
66 A
* *
860958 TTCCTCGAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCATTTTCCTGTTTTTTGG
1 TTCCTCAAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTGG
861023 A
66 A
* * * *
861024 TTCCTCAAACTCATGTTGCATCTTCTTCAAAGTAGATTCAAACTTTGCACTTTCCTGTTTTTTGC
1 TTCCTCAAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTGG
861089 A
66 A
861090 TTCCTCAA
1 TTCCTCAA
861098 GGTCAACCTG
Statistics
Matches: 187, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 187 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (66 bp):
TTCCTCAAACTCAAGTTGCATCTTCTGCAAAGTAGATTCAAACCTTGCACTTTCCTGTTTTTTGG
A
Found at i:870985 original size:23 final size:23
Alignment explanation
Indices: 870959--871005 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
870949 ACTTAACGTG
*
870959 TTTAGTACCTAAGCTATCAGTTT
1 TTTAGTACCTAAACTATCAGTTT
*
870982 TTTAGTACTTAAACTATCAGTTT
1 TTTAGTACCTAAACTATCAGTTT
871005 T
1 T
871006 GGTTCGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.47
Consensus pattern (23 bp):
TTTAGTACCTAAACTATCAGTTT
Found at i:872121 original size:4 final size:4
Alignment explanation
Indices: 872112--872154 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
872102 TTTTCGTCCA
* *
872112 TATT TATT TATT TATT TATT TATT TGTT T-TT TATT TATA TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
872155 ATATAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:872239 original size:37 final size:36
Alignment explanation
Indices: 872147--872411 Score: 172
Period size: 36 Copynumber: 7.1 Consensus size: 36
872137 GTTTTTTATT
*
872147 TATATATTATATAATTTTAAAAAAACATTTTG-AAAATA
1 TATATATTATATAGTTTT---AAAACATTTTGAAAAATA
* * *
872185 TATGATA-TATA-ATTTTTAAAACATTTTAAAAACATT
1 TAT-ATATTATATAGTTTTAAAACATTTTGAAAA-ATA
*
872221 TATATATTATATAGTTTTAAAACGTTTTTGAAAAGA-A
1 TATATATTATATAGTTTTAAAAC-ATTTTGAAAA-ATA
* *
872258 -ATATAATATATAGTTTCCAAAACATTTTTG-AAAATA
1 TATATATTATATAGTTT-TAAAACA-TTTTGAAAAATA
* * *
872294 TACATATTATATAGTTTTTAAAACGTTTTGAAAATAAA
1 TATATATTATATAG-TTTTAAAACATTTTGAAAA-ATA
* * *
872332 TATATAATATATAATTTTTTGAAAAACATTTTGAAAGCATA
1 TATATATTATAT-A-GTTTT--AAAACATTTTGAAA-AATA
*
872373 TATAATATGTA-AT--TTTTAAAACATTTTTAAAAAT-
1 TAT-ATAT-TATATAGTTTTAAAACATTTTGAAAAATA
872407 TATAT
1 TATAT
872412 GGTTTTTTAA
Statistics
Matches: 182, Mismatches: 25, Indels: 45
0.72 0.10 0.18
Matches are distributed among these distances:
33 2 0.01
34 13 0.07
35 9 0.05
36 46 0.25
37 44 0.24
38 35 0.19
39 8 0.04
41 18 0.10
42 5 0.03
43 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (36 bp):
TATATATTATATAGTTTTAAAACATTTTGAAAAATA
Found at i:872267 original size:74 final size:71
Alignment explanation
Indices: 872144--872350 Score: 218
Period size: 74 Copynumber: 2.8 Consensus size: 71
872134 TTTGTTTTTT
* * * *
872144 ATTTATATATTATATAATTTTAAAAAAACATTTTG-AAAATATATGATATATAATTTTTAAAACA
1 ATTTATATATTATATAGTTTT---AAAACGTTTTGAAAAAAATATAATATATAATTTTTAAAACA
872208 TTTTAAAAA
63 TTTTAAAAA
* **
872217 CATTTATATATTATATAGTTTTAAAACGTTTTTGAAAAGAAATATAATATATAGTTTCCAAAACA
1 -ATTTATATATTATATAGTTTTAAAACG-TTTTGAAAA-AAATATAATATATAATTTTTAAAACA
**
872282 TTTTTGAAA
63 TTTTAAAAA
* *
872291 ATATACATATTATATAGTTTTTAAAACGTTTTGAAAATAAATATATAATATATAATTTTT
1 ATTTATATATTATATAG-TTTTAAAACGTTTTG-AAA-AAA-ATATAATATATAATTTTT
872351 TGAAAAACAT
Statistics
Matches: 112, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
71 5 0.04
72 5 0.04
73 23 0.21
74 63 0.56
75 16 0.14
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.44
Consensus pattern (71 bp):
ATTTATATATTATATAGTTTTAAAACGTTTTGAAAAAAATATAATATATAATTTTTAAAACATTT
TAAAAA
Found at i:872411 original size:36 final size:35
Alignment explanation
Indices: 872147--872411 Score: 183
Period size: 37 Copynumber: 7.1 Consensus size: 35
872137 GTTTTTTATT
* * *
872147 TATATATTATATAATTTTAAAAAAACA-TTTTGAAAA
1 TATATAATATATAATTTT--TAAAACATTTTTAAAAA
*
872183 TATATGATATATAATTTTTAAAACA-TTTTAAAAA
1 TATATAATATATAATTTTTAAAACATTTTTAAAAA
* * * *
872217 CATTTATATATTATATAGTTTTAAAACGTTTTTGAAAAGA
1 TATATA-ATA-TATA-ATTTTTAAAACATTTTT-AAAA-A
* * **
872257 AATATAATATATAGTTTCCAAAACATTTTTGAAAATA
1 TATATAATATATAATTTTTAAAACATTTTT-AAAA-A
* * * * *
872294 TACATATTATATAGTTTTTAAAACGTTTTGAAAATAAA
1 TATATAATATATAATTTTTAAAACATTTT--TAA-AAA
* *
872332 TATATAATATATAATTTTTTGAAAAACATTTTGAAAGCA
1 TATATAATATATAA-TTTTT--AAAACATTTTTAAA-AA
*
872371 TATATAATATGTAATTTTTAAAACATTTTTAAAAA
1 TATATAATATATAATTTTTAAAACATTTTTAAAAA
872406 TTATAT
1 -TATAT
872412 GGTTTTTTAA
Statistics
Matches: 182, Mismatches: 33, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
34 17 0.09
35 4 0.02
36 38 0.21
37 51 0.28
38 28 0.15
39 30 0.16
40 5 0.03
41 9 0.05
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (35 bp):
TATATAATATATAATTTTTAAAACATTTTTAAAAA
Found at i:872440 original size:34 final size:34
Alignment explanation
Indices: 872390--872456 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
872380 TGTAATTTTT
* *
872390 AAAACATTTTTAAAAATTATATGGTTTTTTAAAA
1 AAAACACTTTTAAAAATTATATAGTTTTTTAAAA
*
872424 AAAACACTTTTGAAAATTATATAGTTTTTTAAA
1 AAAACACTTTTAAAAATTATATAGTTTTTTAAA
872457 TGGTTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (34 bp):
AAAACACTTTTAAAAATTATATAGTTTTTTAAAA
Found at i:872522 original size:9 final size:10
Alignment explanation
Indices: 872510--872568 Score: 54
Period size: 9 Copynumber: 6.2 Consensus size: 10
872500 AATTTTAAAA
872510 ATATA-TATT
1 ATATATTATT
*
872519 ATATAGTTTTT
1 ATATA-TTATT
872530 ATAT-TTATT
1 ATATATTATT
872539 AT-TATTATT
1 ATATATTATT
*
872548 AT-TATCATT
1 ATATATTATT
*
872557 ATTTATTATT
1 ATATATTATT
872567 AT
1 AT
872569 TTTTTATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 1 0.02
9 26 0.62
10 8 0.19
11 7 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
ATATATTATT
Found at i:872542 original size:3 final size:3
Alignment explanation
Indices: 872534--872599 Score: 68
Period size: 3 Copynumber: 22.7 Consensus size: 3
872524 GTTTTTATAT
*
872534 TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TT- TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
872578 CTTA TTT TTA TT- TTA TT- TTA TT
1 -TTA TTA TTA TTA TTA TTA TTA TT
872600 TTCCCGTTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 8 0.15
3 40 0.74
4 6 0.11
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:872589 original size:13 final size:12
Alignment explanation
Indices: 872528--872596 Score: 77
Period size: 13 Copynumber: 5.6 Consensus size: 12
872518 TATATAGTTT
*
872528 TTATATTTATTA
1 TTATTTTTATTA
*
872540 TTATTATTATTA
1 TTATTTTTATTA
*
872552 TCATTATTTATTA
1 TTATT-TTTATTA
872565 TTATTTTTTATTA
1 TTA-TTTTTATTA
872578 CTTATTTTTATT-
1 -TTATTTTTATTA
872590 TTATTTT
1 TTATTTT
872597 ATTTTCCCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
11 7 0.14
12 14 0.29
13 23 0.47
14 5 0.10
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:875751 original size:19 final size:19
Alignment explanation
Indices: 875727--875772 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
875717 ATTTAGACAT
875727 TTTGCATTTCGTTATTTTC
1 TTTGCATTTCGTTATTTTC
*
875746 TTTGCATTTTGTTATTTTC
1 TTTGCATTTCGTTATTTTC
*
875765 TTTACATT
1 TTTGCATT
875773 CACATTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTGCATTTCGTTATTTTC
Found at i:879466 original size:163 final size:163
Alignment explanation
Indices: 879127--879734 Score: 897
Period size: 163 Copynumber: 3.7 Consensus size: 163
879117 ATCTGCCACC
879127 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
* **
879192 AAAAAGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACA
66 -AAGAGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATAAC-TTTACA
879257 GCATAACTCAAGGCTAGAA-GGTTATCTGTTAGCA
129 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
879291 AAGACC-TTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
**
879355 AAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACTTTACAGC
66 AAGAGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATAACTTTACAGC
879420 ATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 ATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
*
879453 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAA---GAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
* * * * * *
879515 AAGGGCTATCTGCCAAAGACCCCCCGAGTTCGATTACGCTCAGCTTCGAGGGTGCATCA-TTTGC
66 AAGAGCTATCTGCCAAAGA-CCCCCAAGTTCGATTACACTCAGCTTC-AAGG-GCATAACTTTAC
* * * ** *
879579 AGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAA
128 AGCATAACTCAAGGCTAGAAGGGTTATCTG-TTAGC-A
*
879617 AAGACCTTCGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGTATAGCTTAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGTATAGCTTAAGTCGA
* * *
879681 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCA
65 GAAGAGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCA
879735 CATCATTTGC
Statistics
Matches: 412, Mismatches: 21, Indels: 22
0.91 0.05 0.05
Matches are distributed among these distances:
160 21 0.05
161 48 0.12
162 111 0.27
163 119 0.29
164 63 0.15
165 2 0.00
166 26 0.06
167 22 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (163 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
AAGAGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATAACTTTACAGC
ATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
Found at i:879720 original size:327 final size:323
Alignment explanation
Indices: 879127--879734 Score: 909
Period size: 327 Copynumber: 1.9 Consensus size: 323
879117 ATCTGCCACC
*
879127 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAA--CGAG
**
879192 AAAAAGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACA
64 AAAAAGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCAT-ACATTTACA
* ** *
879257 GCATAACTCAAGGCTAGAAGGTTATCTGTTAGCAAAGACCTTGAGTTCGACTACGCTCAGCTCCA
128 GCATAACTCAAGGCAAGAAGGTTATCTGCAACCAAAGACCTTGAGTTCGACTACGCTCAGCTCCA
**
879322 AGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGA
193 AGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAAGTTCGA
879387 TTACACTCAGCTTCAAGGGCATAACTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGC
258 TTACACTCAGCTTCAAGGGCATAACTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGC
879452 A
323 A
879453 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAA-GAG-A
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAACGAGAA
** * * * *
879516 AGGGCTATCTGCCAAAGACCCCCCGAGTTCGATTACGCTCAGCTTCGAGGGTGCAT-CATTTGCA
66 AAAGCTATCTGCCAAAGA-CCCCCAAGTTCGATTACACTCAGCTTC-AAGG-GCATACATTTACA
* *
879580 GCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGC
128 GCATAACTCAAGGCAAGAA-GGTTATCTG-CAACC-AAAGACCTT-GAGTTCGACTACGCTCAGC
* *
879645 T-CAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAG
189 TCCAA-GGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAAG
*
879709 TTCGATTACACTCAGCTTCGAGGGCA
253 TTCGATTACACTCAGCTTCAAGGGCA
879735 CATCATTTGC
Statistics
Matches: 254, Mismatches: 20, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
322 17 0.07
323 49 0.19
324 12 0.05
325 6 0.02
326 70 0.28
327 100 0.39
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (323 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAACGAGAA
AAAGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATACATTTACAGCA
TAACTCAAGGCAAGAAGGTTATCTGCAACCAAAGACCTTGAGTTCGACTACGCTCAGCTCCAAGG
CACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAAGTTCGATTA
CACTCAGCTTCAAGGGCATAACTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
Found at i:879766 original size:54 final size:54
Alignment explanation
Indices: 879707--879816 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
879697 AAGACCCCCG
*
879707 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCA
1 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCA
* *
879761 AGTTCGATTACGCTCAGCTTCGAGGGCGCATCATTTGCAGCATAACTTAAGTCA
1 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCA
879815 AG
1 AG
879817 AAGGGTTATC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (54 bp):
AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCA
Found at i:879921 original size:219 final size:220
Alignment explanation
Indices: 879541--879950 Score: 743
Period size: 219 Copynumber: 1.9 Consensus size: 220
879531 AGACCCCCCG
*
879541 AGTTCGATTACGCTCAGCTTCGAGGGTGCATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTAT
1 AGTTCGATTACGCTCAGCTTCGAGGGCGCATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTAT
*
879606 CTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGTATAG
66 CTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAG
* *
879671 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
131 CTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCAC
879736 ATCATTTGCAGTATAACTTAAGTCA
196 ATCATTTGCAGTATAACTTAAGTCA
879761 AGTTCGATTACGCTCAGCTTCGAGGGCGCATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTAT
1 AGTTCGATTACGCTCAGCTTCGAGGGCGCATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTAT
* *
879826 CTGCCAACC-AAAGACCTTCGAGTTTGACTACGCTCAGCTCTAA-GGCATATCATTTGCAGCATA
66 CTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC-AACGGCACATCATTTGCAGCATA
879889 GCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
130 GCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
879951 TCATATCGTT
Statistics
Matches: 183, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
219 108 0.59
220 75 0.41
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (220 bp):
AGTTCGATTACGCTCAGCTTCGAGGGCGCATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTAT
CTGCCAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAG
CTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCAC
ATCATTTGCAGTATAACTTAAGTCA
Found at i:880648 original size:34 final size:35
Alignment explanation
Indices: 880581--880808 Score: 146
Period size: 34 Copynumber: 6.4 Consensus size: 35
880571 TAATTTTAAA
* * *
880581 AAAACATTTT-GAAA-ATATATGATATATATTTTT
1 AAAACATTTTAAAAACATATATAATATATAGTTTT
*
880614 AAAACATTTTAAAAACATTTAT-ATATATAGTTTT
1 AAAACATTTTAAAAACATATATAATATATAGTTTT
* * * * *
880648 AAAACGTTTTTGAAAAGAAATAT-A-ATATAGTTTCC
1 AAAAC-ATTTTAAAAACATATATAATATATAGTTT-T
* * *
880683 AAAACATTTT-GAAATATACAT-ATATATAGTTTT
1 AAAACATTTTAAAAACATATATAATATATAGTTTT
* * *
880716 AAAACGTTTTGAAAATAAATATATAATATATAATTTTTT
1 AAAACATTTT-AAAA-ACATATATAATATAT-A-GTTTT
* * * *
880755 GAAAAACATTTTGAAAGCATATATAATATGTAATTTTT
1 --AAAACATTTTAAAAACATATATAATATAT-AGTTTT
880793 AAAACATTTTTAAAAA
1 AAAACA-TTTTAAAAA
880809 TTATATGGTT
Statistics
Matches: 154, Mismatches: 27, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
33 27 0.18
34 41 0.27
35 25 0.16
36 12 0.08
37 13 0.08
38 6 0.04
39 18 0.12
40 3 0.02
41 9 0.06
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (35 bp):
AAAACATTTTAAAAACATATATAATATATAGTTTT
Found at i:880676 original size:68 final size:67
Alignment explanation
Indices: 880581--880738 Score: 194
Period size: 68 Copynumber: 2.3 Consensus size: 67
880571 TAATTTTAAA
* * ** **
880581 AAAACATTTTGAAAATATATGAT-ATATA-TTTTTAAAACATTTTAAAAACATTTATATATATAG
1 AAAACGTTTTGAAAATAAAT-ATAATATAGTTTCCAAAACATTTT-AAAACATACATATATATAG
880644 TTTT
64 TTTT
* * *
880648 AAAACGTTTTTGAAAAGAAATATAATATAGTTTCCAAAACATTTTGAAATATACATATATATAGT
1 AAAACG-TTTTGAAAATAAATATAATATAGTTTCCAAAACATTTTAAAACATACATATATATAGT
880713 TTT
65 TTT
880716 AAAACGTTTTGAAAATAAATATA
1 AAAACGTTTTGAAAATAAATATA
880739 TAATATATAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
67 23 0.29
68 42 0.54
69 13 0.17
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (67 bp):
AAAACGTTTTGAAAATAAATATAATATAGTTTCCAAAACATTTTAAAACATACATATATATAGTT
TT
Found at i:880761 original size:41 final size:39
Alignment explanation
Indices: 880716--880814 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 39
880706 ATATAGTTTT
*
880716 AAAACGTTTTGAAAATAAATATATAATATATAATTTTTTGA
1 AAAACATTTTG-AAA-AAATATATAATATATAATTTTTTGA
** *
880757 AAAACATTTTGAAAGCATATATAATATGTAA-TTTTT--
1 AAAACATTTTGAAAAAATATATAATATATAATTTTTTGA
* *
880793 AAAACATTTTTAAAAATTATAT
1 AAAACATTTTGAAAAAATATAT
880815 GGTTTTTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
36 18 0.36
38 5 0.10
39 14 0.28
40 3 0.06
41 10 0.20
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.41
Consensus pattern (39 bp):
AAAACATTTTGAAAAAATATATAATATATAATTTTTTGA
Found at i:880844 original size:35 final size:35
Alignment explanation
Indices: 880793--880860 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
880783 TGTAATTTTT
* *
880793 AAAACATTTTTAAAAATTATATGGTTTTTTAAAAA
1 AAAACACTTTTAAAAATTATATAGTTTTTTAAAAA
*
880828 AAAACACTTTTGAAAATTATATAGTTTTTTAAA
1 AAAACACTTTTAAAAATTATATAGTTTTTTAAA
880861 TGGTTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (35 bp):
AAAACACTTTTAAAAATTATATAGTTTTTTAAAAA
Found at i:880926 original size:9 final size:10
Alignment explanation
Indices: 880914--880972 Score: 54
Period size: 9 Copynumber: 6.2 Consensus size: 10
880904 AATTTTAAAA
880914 ATATA-TATT
1 ATATATTATT
*
880923 ATATAGTTTTT
1 ATATA-TTATT
880934 ATAT-TTATT
1 ATATATTATT
880943 AT-TATTATT
1 ATATATTATT
*
880952 AT-TATCATT
1 ATATATTATT
*
880961 ATTTATTATT
1 ATATATTATT
880971 AT
1 AT
880973 TTTTTATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 1 0.02
9 26 0.62
10 8 0.19
11 7 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
ATATATTATT
Found at i:880946 original size:3 final size:3
Alignment explanation
Indices: 880938--880987 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
880928 GTTTTTATAT
*
880938 TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TT- TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
880982 CTTA TT
1 -TTA TT
880988 TTTTTTCCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 32 0.76
4 6 0.14
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:880989 original size:13 final size:12
Alignment explanation
Indices: 880932--880990 Score: 64
Period size: 13 Copynumber: 4.7 Consensus size: 12
880922 TATATAGTTT
*
880932 TTATATTTATTA
1 TTATTTTTATTA
*
880944 TTATTATTATTA
1 TTATTTTTATTA
*
880956 TCATTATTTATTA
1 TTATT-TTTATTA
880969 TTATTTTTTATTA
1 TTA-TTTTTATTA
880982 CTTATTTTT
1 -TTATTTTT
880991 TTTCCCCGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
12 14 0.36
13 20 0.51
14 5 0.13
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:882825 original size:78 final size:78
Alignment explanation
Indices: 882696--882852 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
882686 TGGCGACTCC
882696 AACCCAATTAATCTAAGTCGAAGCCCAATTCTGGGGCCCAACCGGAAAGACGGTTCCGACAGTAA
1 AACCCAATTAATCTAAGTCGAAGCCCAATTCTGGGGCCCAACCGGAAAGACGGTTCCGACAGTAA
882761 GGTCACAAATTAT
66 GGTCACAAATTAT
*
882774 AACCCAATTAATCTAAGTCGAAGCCCAATTCTGTGGCCCAACCGGAAAGACGGTTCCGACAGTAA
1 AACCCAATTAATCTAAGTCGAAGCCCAATTCTGGGGCCCAACCGGAAAGACGGTTCCGACAGTAA
882839 GGTCACAAATTAT
66 GGTCACAAATTAT
882852 A
1 A
882853 TCACAGTGTT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (78 bp):
AACCCAATTAATCTAAGTCGAAGCCCAATTCTGGGGCCCAACCGGAAAGACGGTTCCGACAGTAA
GGTCACAAATTAT
Found at i:885879 original size:20 final size:22
Alignment explanation
Indices: 885854--885894 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
885844 TTTTATAAAA
*
885854 TAAAAT-AA-TATATATTTATG
1 TAAAATCAAGTATAAATTTATG
885874 TAAAATCAAGTATAAATTTAT
1 TAAAATCAAGTATAAATTTAT
885895 CTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (22 bp):
TAAAATCAAGTATAAATTTATG
Found at i:887923 original size:42 final size:39
Alignment explanation
Indices: 887877--887958 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 39
887867 AATCAATATT
* *
887877 AATTAATTAAAAAATTTATATTTTATAATTATATATTATTTA
1 AATTAATT-AAAAA-TTAT-TTTTATAATTATAAAATATTTA
* *
887919 AATTAATTATAAATTATTTTTTTAATTATAAAATATTTA
1 AATTAATTAAAAATTATTTTTATAATTATAAAATATTTA
887958 A
1 A
887959 TTTTTATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 20 0.56
40 4 0.11
41 4 0.11
42 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (39 bp):
AATTAATTAAAAATTATTTTTATAATTATAAAATATTTA
Found at i:887952 original size:20 final size:19
Alignment explanation
Indices: 887892--887956 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
887882 ATTAAAAAAT
* *
887892 TTATATTTTATAATTATATA
1 TTAT-TTTTTTAATTATAAA
**
887912 TTATTTAAATTAATTATAAA
1 TTATTT-TTTTAATTATAAA
887932 TTATTTTTTTAATTATAAA
1 TTATTTTTTTAATTATAAA
*
887951 ATATTT
1 TTATTT
887957 AATTTTTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 18 0.49
20 19 0.51
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATTTTTTTAATTATAAA
Found at i:889192 original size:32 final size:34
Alignment explanation
Indices: 889120--889204 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
889110 GCCCCGATTA
*
889120 TATATATATAATATTTTATATTTTTTATGTTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
*
889154 TATATATATAATATTTTATGTTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
*
889188 TATATATAAAATATTTT
1 TATATATATAATATTTT
889205 CGGGTTTGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:890233 original size:130 final size:130
Alignment explanation
Indices: 890087--890334 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
890077 TATTTATATA
*
890087 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* *
890152 TTAGCACATGATCATGACACGTGTCATTCGTGACACATGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTCGTGACACATGTCACCACCTAATTATTTATATATGCT
890217 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * * *
890282 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTCGTGACACATGTCACCACCTAATTA
890335 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTCGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:890365 original size:130 final size:129
Alignment explanation
Indices: 890101--890365 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
890091 ATTTGGTCCT
* *
890101 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
890166 TGACACGTGTCATTCGTGACACATGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTCGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
890231 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * * *
890296 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTCGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
890360 -A
128 CA
890361 AAATT
1 AAATT
890366 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTCGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:890692 original size:28 final size:27
Alignment explanation
Indices: 890661--890723 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
890651 AGTTGATACA
*
890661 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
890689 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
890717 ATATTTT
1 ATATTTT
890724 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:890824 original size:16 final size:18
Alignment explanation
Indices: 890803--890836 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
890793 ATTTCTTATT
890803 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
890819 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
890837 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:890983 original size:21 final size:21
Alignment explanation
Indices: 890959--891001 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
890949 TATTACCTTA
890959 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
890980 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
891001 A
1 A
891002 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:891019 original size:35 final size:35
Alignment explanation
Indices: 890970--891055 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
890960 ATTGAAGTAT
** * *
890970 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
891005 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
891040 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
891056 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:898958 original size:28 final size:30
Alignment explanation
Indices: 898924--898984 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
898914 GTTCATGTTC
898924 ATTTATTTATT-TT-TGAAAATGTTCGTTT
1 ATTTATTTATTATTATGAAAATGTTCGTTT
*
898952 ATTTATTTATTATTCATGAACATGTTCGTTT
1 ATTTATTTATTATT-ATGAAAATGTTCGTTT
898983 AT
1 AT
898985 ATGTTCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 11 0.38
29 2 0.07
31 16 0.55
ACGTcount: A:0.26, C:0.07, G:0.10, T:0.57
Consensus pattern (30 bp):
ATTTATTTATTATTATGAAAATGTTCGTTT
Found at i:903183 original size:64 final size:64
Alignment explanation
Indices: 903098--903257 Score: 207
Period size: 64 Copynumber: 2.5 Consensus size: 64
903088 TTGTTTAAAG
* * * ** *
903098 TGCATCGATGCACATGCAGTGCATCGATGCAT-GATTTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCACAAGTAGTGCATCGATGCATCCACATTAAATA-AAAACATCGAAT-GCATTTT
903161 A
64 A
* *
903162 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGTAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
*
903226 TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TGCATCGATGCACAAGTAGTGCATCGATGCAT
903258 ACATTCATTG
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 2 0.02
64 75 0.89
65 7 0.08
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCACAAGTAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
Found at i:903768 original size:17 final size:19
Alignment explanation
Indices: 903746--903781 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
903736 GATTTACATG
903746 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
903763 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
903782 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:904002 original size:30 final size:30
Alignment explanation
Indices: 903915--904021 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
903905 AGTCGAGGGT
* *
903915 TTTACCTATG-TCTTTCGAGACATATGGACA
1 TTTACCTAGGTTCTTT-GGGACATATGGACA
* * ** *
903945 GTATACCTATGTTCTAAGGAACATATGGACA
1 -TTTACCTAGGTTCTTTGGGACATATGGACA
*
903976 TTTACCTAGGTTCTTTGGGACCTATGGACA
1 TTTACCTAGGTTCTTTGGGACATATGGACA
* * *
904006 GTTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
904022 ATGACCTCTG
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
30 37 0.61
31 21 0.34
32 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (30 bp):
TTTACCTAGGTTCTTTGGGACATATGGACA
Found at i:904028 original size:30 final size:30
Alignment explanation
Indices: 903937--904042 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 30
903927 TTTCGAGACA
* * * *
903937 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* * *
903968 TATGGACATTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
903998 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
904028 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
904043 GGGTCTGTGT
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
30 49 0.80
31 12 0.20
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:908646 original size:21 final size:20
Alignment explanation
Indices: 908622--908767 Score: 127
Period size: 21 Copynumber: 7.0 Consensus size: 20
908612 ACTTTGACTA
908622 TCGCATTGCGATAGTCCAAGT
1 TCGC-TTGCGATAGTCCAAGT
** *
908643 TCGCGTTGCGATTTTCCAAAT
1 TCGC-TTGCGATAGTCCAAGT
*
908664 TCG-TTGCGATAGTCGAAGT
1 TCGCTTGCGATAGTCCAAGT
* *
908683 TCGCGTTGCGATTTATTCCAAAT
1 TCGC-TTGCGA--TAGTCCAAGT
908706 TCG-TTGCGATAGTCCAAGT
1 TCGCTTGCGATAGTCCAAGT
*
908725 TCGCGTTGCGATTTATTCCAAGT
1 TCGC-TTGCGA--TAGTCCAAGT
*
908748 TCG-TTGCGATAGTCGAAGT
1 TCGCTTGCGATAGTCCAAGT
908767 T
1 T
908768 TGAGTTACGA
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
19 35 0.35
21 44 0.44
23 22 0.22
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
TCGCTTGCGATAGTCCAAGT
Found at i:908715 original size:42 final size:42
Alignment explanation
Indices: 908627--908806 Score: 292
Period size: 42 Copynumber: 4.3 Consensus size: 42
908617 GACTATCGCA
908627 TTGCGATAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
908667 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
908709 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * * *
908751 TTGCGATAGTCGAAGTTTGAGTTACGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
908793 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
908807 AATCGCAATG
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 26 0.20
41 2 0.02
42 101 0.78
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:909551 original size:21 final size:21
Alignment explanation
Indices: 909526--909799 Score: 230
Period size: 21 Copynumber: 13.3 Consensus size: 21
909516 TTTGGAATAA
*
909526 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* **
909547 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
909566 ATCGCAACGCGAACTTGAACT
1 ATCGCAACGCGAACTTGGACT
* *
909587 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
909606 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
* * * *
909629 AGCACAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
* *
909648 AAATTGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* *
909671 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
909690 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
909713 ATCGCAA--CGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
909732 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
909751 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
909772 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
909793 ATCGCAA
1 ATCGCAA
909800 TGTTAATATG
Statistics
Matches: 198, Mismatches: 39, Indels: 32
0.74 0.14 0.12
Matches are distributed among these distances:
19 77 0.39
21 93 0.47
23 28 0.14
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:909569 original size:19 final size:19
Alignment explanation
Indices: 909524--909759 Score: 114
Period size: 19 Copynumber: 11.6 Consensus size: 19
909514 AATTTGGAAT
*
909524 AAATCGCAACGCGAACTTCGA
1 AAATCGCAA--CGAACTTGGA
** *
909545 CTATCGCAACGAATTTGGA
1 AAATCGCAACGAACTTGGA
909564 AAATCGCAACGCGAACTT-GA
1 AAATCGCAA--CGAACTTGGA
* *
909584 ACTATCGCAACGAATTTGGAA
1 A-AATCGCAACGAACTTGG-A
909605 TAAATCGCAACGCGAACTTGGA
1 -AAATCGCAA--CGAACTTGGA
** * * *
909627 CTAGCACAACGAATTTGGAA
1 AAATCGCAACGAACTTGG-A
* *
909647 TAAATTGCAACGCGAACTTCGA
1 -AAATCGCAA--CGAACTTGGA
** *
909669 CTATCGCAACGAATTTGGAA
1 AAATCGCAACGAACTTGG-A
*
909689 TAAATCGCAACGCGAACTTCGA
1 -AAATCGCAA--CGAACTTGGA
**
909711 CTATCGCAACGAACTTGGA
1 AAATCGCAACGAACTTGGA
** *
909730 CTATCGCAACGAATTTGGA
1 AAATCGCAACGAACTTGGA
909749 AAATCGCAACG
1 AAATCGCAACG
909760 CGAACTTCGA
Statistics
Matches: 161, Mismatches: 38, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
19 72 0.45
20 6 0.04
21 57 0.35
22 4 0.02
23 22 0.14
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (19 bp):
AAATCGCAACGAACTTGGA
Found at i:909623 original size:42 final size:42
Alignment explanation
Indices: 909512--909729 Score: 361
Period size: 42 Copynumber: 5.2 Consensus size: 42
909502 CAAGTCGTTG
909512 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
909554 CGAATTTGG-A-AAATCGCAACGCGAACTT-GAACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCG-ACTATCGCAA
* * *
909594 CGAATTTGGAATAAATCGCAACGCGAACTTGGACTAGCACAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
*
909636 CGAATTTGGAATAAATTGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
909678 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
*
909720 CGAACTTGGA
1 CGAATTTGGA
909730 CTATCGCAAC
Statistics
Matches: 164, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
39 1 0.01
40 37 0.23
41 2 0.01
42 123 0.75
43 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (42 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
Found at i:909785 original size:61 final size:61
Alignment explanation
Indices: 909526--909799 Score: 301
Period size: 61 Copynumber: 4.5 Consensus size: 61
909516 TTTGGAATAA
*
909526 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTT-GAACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCG-ACT
* * * ** * * * * *
909587 ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTGGACTAGCACAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT--ATCGCAA--CGAATTTGGAAAATCGCAACGCGAACTTCGACT
* *
909648 AAATTGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACT
909713 ATCGCAA--CGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
909772 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAACGCGAACTTGGACTATCGCAA
909800 TGTTAATATG
Statistics
Matches: 174, Mismatches: 24, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
59 39 0.22
60 1 0.01
61 76 0.44
62 2 0.01
63 38 0.22
65 18 0.10
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (61 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:909844 original size:21 final size:21
Alignment explanation
Indices: 909820--909866 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
909810 TAAATCGCAA
909820 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
909841 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
909862 TGCGA
1 TGCGA
909867 ATCTGGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCGT
Found at i:910677 original size:14 final size:14
Alignment explanation
Indices: 910636--910677 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
910626 TTTGAGTTAT
910636 AATTTAAAGAT-AA
1 AATTTAAAGATAAA
* *
910649 AATTTGAATGTTAAA
1 AATTT-AAAGATAAA
910664 AATTTAAAGATAAA
1 AATTTAAAGATAAA
910678 TTTAAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (14 bp):
AATTTAAAGATAAA
Found at i:910954 original size:24 final size:24
Alignment explanation
Indices: 910927--910997 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
910917 AGTTTCAGTA
910927 GACGGACGACAAATTTGAACGGTG
1 GACGGACGACAAATTTGAACGGTG
* *
910951 GACGTA-G-CATAGTTT---CGGTG
1 GACGGACGACA-AATTTGAACGGTG
*
910971 GACGGACGACAAATCTGAACGGTG
1 GACGGACGACAAATTTGAACGGTG
910995 GAC
1 GAC
910998 CATGAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
20 10 0.28
21 4 0.11
22 4 0.11
23 5 0.14
24 13 0.36
ACGTcount: A:0.30, C:0.18, G:0.34, T:0.18
Consensus pattern (24 bp):
GACGGACGACAAATTTGAACGGTG
Found at i:910962 original size:44 final size:44
Alignment explanation
Indices: 910914--910997 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
910904 GCTGACGTGA
*
910914 CATAGTTTCAGTAGACGGACGACAAATTTGAACGGTGGACGTAG
1 CATAGTTTCAGTAGACGGACGACAAATCTGAACGGTGGACGTAG
* *
910958 CATAGTTTCGGTGGACGGACGACAAATCTGAACGGTGGAC
1 CATAGTTTCAGTAGACGGACGACAAATCTGAACGGTGGAC
910998 CATGAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (44 bp):
CATAGTTTCAGTAGACGGACGACAAATCTGAACGGTGGACGTAG
Found at i:912493 original size:39 final size:40
Alignment explanation
Indices: 912391--912486 Score: 158
Period size: 40 Copynumber: 2.4 Consensus size: 40
912381 TTGAACGAGA
*
912391 TACTAAAATGAAACAAAAACTAAAGTTTTTAAAGATGAGG
1 TACTAAAATGAAACAAAAACTAAAGTTTTTAAAGATAAGG
* *
912431 TACTAAAATAAAACAAAAACTAAAGTTTTTAATGA-AAGG
1 TACTAAAATGAAACAAAAACTAAAGTTTTTAAAGATAAGG
912470 TACTAAAATGAAACAAA
1 TACTAAAATGAAACAAA
912487 GGCTAAACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 19 0.37
40 33 0.63
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.24
Consensus pattern (40 bp):
TACTAAAATGAAACAAAAACTAAAGTTTTTAAAGATAAGG
Found at i:912896 original size:12 final size:12
Alignment explanation
Indices: 912873--912904 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
912863 TTTCATAGCT
912873 GAAAAGAAGGGG
1 GAAAAGAAGGGG
912885 G-AAAGAAGGGG
1 GAAAAGAAGGGG
912896 GAAAAGAAG
1 GAAAAGAAG
912905 AGTAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (12 bp):
GAAAAGAAGGGG
Found at i:928550 original size:17 final size:17
Alignment explanation
Indices: 928517--928558 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
928507 TTTTAATAAA
*
928517 TAAATT-TA-GTTTTAT
1 TAAATTCTATGTTTAAT
928532 TAAATTCTATGTTTAAT
1 TAAATTCTATGTTTAAT
928549 TAAATTCTAT
1 TAAATTCTAT
928559 AGTATAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 6 0.25
16 2 0.08
17 16 0.67
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (17 bp):
TAAATTCTATGTTTAAT
Found at i:939084 original size:24 final size:25
Alignment explanation
Indices: 939057--939104 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
939047 TCATTGAAAA
939057 TATTATAAAA-ATCATAAT-ATTATT
1 TATTA-AAAATATCATAATAATTATT
*
939081 TATTAAAAATATTATAATAATTAT
1 TATTAAAAATATCATAATAATTAT
939105 AATAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTAAAAATATCATAATAATTATT
Found at i:939095 original size:33 final size:34
Alignment explanation
Indices: 939044--939114 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
939034 ATCGAAAAAA
* *
939044 ATTTCATTGAAAATATTATAAAAATCATAATATT
1 ATTTCATTAAAAATATTATAAAAATCATAATAAT
* *
939078 ATTT-ATTAAAAATATTATAATAATTATAATAAT
1 ATTTCATTAAAAATATTATAAAAATCATAATAAT
939111 ATTT
1 ATTT
939115 TTCAATTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (34 bp):
ATTTCATTAAAAATATTATAAAAATCATAATAAT
Found at i:940047 original size:13 final size:13
Alignment explanation
Indices: 940029--940053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
940019 AAAAATCTCA
940029 TTATTTTGTTTTC
1 TTATTTTGTTTTC
940042 TTATTTTGTTTT
1 TTATTTTGTTTT
940054 ATTTTTCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.04, G:0.08, T:0.80
Consensus pattern (13 bp):
TTATTTTGTTTTC
Found at i:941636 original size:8 final size:8
Alignment explanation
Indices: 941609--941652 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
941599 TAGGATCATA
*
941609 TATATATC
1 TATATATG
* *
941617 TATGTGTG
1 TATATATG
941625 TATATATG
1 TATATATG
941633 TATATATG
1 TATATATG
941641 TATCATATG
1 TAT-ATATG
941650 TAT
1 TAT
941653 GTAATATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:951964 original size:30 final size:29
Alignment explanation
Indices: 951901--952892 Score: 719
Period size: 30 Copynumber: 33.6 Consensus size: 29
951891 AAGGAGGTGA
* * *
951901 TGGTGACTTGTACTTGTATGGGGTGAAGG
1 TGGTGACTTATACTTGTATGAGGTGGAGG
* *
951930 TGGTGACTCATACTTGTAATGAGGTGGTGG
1 TGGTGACTTATACTTGT-ATGAGGTGGAGG
* * *
951960 TGGTGATTTGTACTTGTATGGAGGTGTAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
* * *
951990 TGGGGACTTATACTTGTACGGAGGTGGTGG
1 TGGTGACTTATACTTGTA-TGAGGTGGAGG
*
952020 TGGTGACTTGTACTTGTATGAAGGTGGAGG
1 TGGTGACTTATACTTGTATG-AGGTGGAGG
* * * *
952050 TGGAGACTCATACTTGTACGGAGGTGGTGG
1 TGGTGACTTATACTTGTA-TGAGGTGGAGG
*
952080 TGGTGACTTGTACTTGTATGGAGGTGGAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
* * * *
952110 TGGGGACTCATACTTGTACGGAGGTGGTGG
1 TGGTGACTTATACTTGTA-TGAGGTGGAGG
* * *
952140 TGGTGATTTGTACTTGTATGGAGGTGAAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
* *
952170 TGGTGACTCATACTTGTA--CGGTGGAGG
1 TGGTGACTTATACTTGTATGAGGTGGAGG
*
952197 TGCGGGTGACTTGTACTTGTATGAAGGTGGAGG
1 T---GGTGACTTATACTTGTATG-AGGTGGAGG
* * * **
952230 TGATGACTCATACTTGGACAT-ATATGGAGG
1 TGGTGACTTATACTT-G-TATGAGGTGGAGG
* *
952260 TGGTGACTTGTA--TG---GAAGTGGAGG
1 TGGTGACTTATACTTGTATGAGGTGGAGG
* * *
952284 TGGGGACTCATACTTGTACGA--TGGTA-G
1 TGGTGACTTATACTTGTATGAGGTGG-AGG
* *
952311 TGGGTGACTTGTACTTGTATGGAGGTAGAGG
1 T-GGTGACTTATACTTGTAT-GAGGTGGAGG
* * * *
952342 TGGTGACTCATATTTGTACGGAGATGGAGG
1 TGGTGACTTATACTTGTA-TGAGGTGGAGG
* * * *
952372 TGGTGACTCATACTTGTACGGTGGTGGTAAG
1 TGGTGACTTATACTTGTA-TGAGGTGG-AGG
*
952403 -GGTGAC-TAGTACTTGTATGGAGGTGGTGG
1 TGGTGACTTA-TACTTGTAT-GAGGTGGAGG
* *
952432 TGGTGATTTGTACTTGTATGGAGGTGGAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
* * * *
952462 TGGTGACTCATGCTTGTAAGGAGGTGGTGG
1 TGGTGACTTATACTTGT-ATGAGGTGGAGG
* * *
952492 TGGTGATTTGTACTTGTATGGAGGTGAAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
*
952522 TGGTGACTTATACTTGTACGATGGTAGTG-GG
1 TGGTGACTTATACTTGTATGA-GGT-G-GAGG
*
952553 T-GTGACTTGTACTTGTATGGAGGTGGAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
* * * *
952582 TGGTGACTCATACTTGTACGGTGGTGGTGG
1 TGGTGACTTATACTTGTA-TGAGGTGGAGG
* * *
952612 -GGTAACTTGTACTTGTATGGAGGTGGAAG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
* *
952641 TGGTAACTCATACTTGTATAGAGGTGGAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
*
952671 TGGTGACTTGTACTTGTATGGAGGTGGAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
* * * *
952701 TGGTGACTCATACTTGAAGGAGGTGGTGG
1 TGGTGACTTATACTTGTATGAGGTGGAGG
* * *
952730 TGGTGATTTGTACTTGTATGGAGGTGGAAG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
* * *
952760 TGGTGACTCATACTTGTA--AGGAGGTGG
1 TGGTGACTTATACTTGTATGAGGTGGAGG
* *
952787 TGGTGATTTGTACTTGTATAGAGGTGGAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
* * * *
952817 TGGTGACTCATACTTAGAAGGAGGTGGTGG
1 TGGTGACTTATACTT-GTATGAGGTGGAGG
* *
952847 TGGTGATTTGTACTTGTATGGAGGTGGAGG
1 TGGTGACTTATACTTGTAT-GAGGTGGAGG
*
952877 -GG-GACTCATACTTGTA
1 TGGTGACTTATACTTGTA
952893 CGGTGGGGAA
Statistics
Matches: 748, Mismatches: 164, Indels: 103
0.74 0.16 0.10
Matches are distributed among these distances:
24 16 0.02
26 2 0.00
27 35 0.05
28 28 0.04
29 79 0.11
30 559 0.75
31 18 0.02
32 2 0.00
33 9 0.01
ACGTcount: A:0.20, C:0.09, G:0.40, T:0.32
Consensus pattern (29 bp):
TGGTGACTTATACTTGTATGAGGTGGAGG
Found at i:952014 original size:60 final size:60
Alignment explanation
Indices: 951896--952895 Score: 1254
Period size: 60 Copynumber: 16.9 Consensus size: 60
951886 ATATGAAGGA
* * **
951896 GGTGATGGTGACTTGTACTTGTATGG-GGTGAAGGTGGTGACTCATACTTGTAATGAGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* * * *
951955 GGTGGTGGTGATTTGTACTTGTATGGAGGTGTAGGTGGGGACTTATACTTGTACGGAGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* *
952015 GGTGGTGGTGACTTGTACTTGTATGAAGGTGGAGGTGGAGACTCATACTTGTACGGAGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
*
952075 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGGGACTCATACTTGTACGGAGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* * * *
952135 GGTGGTGGTGATTTGTACTTGTATGGAGGTGAAGGTGGTGACTCATACTTGTACGGTGGA
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* * * **
952195 GGTGCG-GGTGACTTGTACTTGTATGAAGGTGGAGGTGATGACTCATACTTGGAC--ATAT
1 GGTG-GTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* * * * *
952253 -ATGGAGGTG--GTG-ACTTGTATGGAAGTGGAGGTGGGGACTCATACTTGTAC-GA--T
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* * * *
952306 GGTAGTGGGTGACTTGTACTTGTATGGAGGTAGAGGTGGTGACTCATATTTGTACGGAGAT
1 GGTGGT-GGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* ** * * * *
952367 GGAGGTGGTGACTCATACTTGTACGGTGGTGGTAAG-GGTGACT-AGTACTTGTATGGAGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGG-AGGTGGTGACTCA-TACTTGTACGGAGGT
* * *
952427 GGTGGTGGTGATTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATGCTTGTAAGGAGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* * *
952487 GGTGGTGGTGATTTGTACTTGTATGGAGGTGAAGGTGGTGACTTATACTTGTAC-GATGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGA-GGT
* *
952547 AGTGG-GTGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGTGGT
1 GGTGGTG-GTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* * * **
952607 GGTGG-GGTAACTTGTACTTGTATGGAGGTGGAAGTGGTAACTCATACTTGTATAGAGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* *
952666 GGAGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTG-AAGGAGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* * *
952725 GGTGGTGGTGATTTGTACTTGTATGGAGGTGGAAGTGGTGACTCATACTTGTA---AGGA
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
* * *
952782 GGTGGTGGTGATTTGTACTTGTATAGAGGTGGAGGTGGTGACTCATACTTAG-AAGGAGGT
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTT-GTACGGAGGT
*
952842 GGTGGTGGTGATTTGTACTTGTATGGAGGTGGAGG-GG-GACTCATACTTGTACGG
1 GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGG
952896 TGGGGAACTA
Statistics
Matches: 821, Mismatches: 94, Indels: 53
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.00
54 35 0.04
55 7 0.01
56 1 0.00
57 61 0.07
58 49 0.06
59 139 0.17
60 518 0.63
61 10 0.01
ACGTcount: A:0.20, C:0.09, G:0.40, T:0.32
Consensus pattern (60 bp):
GGTGGTGGTGACTTGTACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTACGGAGGT
Found at i:953030 original size:18 final size:17
Alignment explanation
Indices: 952998--953031 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
952988 ATGATTGTGA
952998 TTTTATTTTAATTTCTT
1 TTTTATTTTAATTTCTT
*
953015 TTTTGTTTTCAATTTCT
1 TTTTATTTT-AATTTCT
953032 CATTTAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTATTTTAATTTCTT
Found at i:953294 original size:17 final size:16
Alignment explanation
Indices: 953257--953329 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 16
953247 TAATCTTTTG
*
953257 TAAATATATATTTTATT
1 TAAA-ATATATTTTATA
953274 TAAAATATATTTTCATA
1 TAAAATATATTTT-ATA
**
953291 T-AAAT-TATGAGTATCA
1 TAAAATATAT-TTTAT-A
953307 TAAAATATATTTTATTA
1 TAAAATATATTTTA-TA
953324 TAAAAT
1 TAAAAT
953330 CTTTGATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
15 5 0.11
16 16 0.36
17 20 0.44
18 4 0.09
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (16 bp):
TAAAATATATTTTATA
Found at i:954382 original size:78 final size:78
Alignment explanation
Indices: 954253--954409 Score: 269
Period size: 78 Copynumber: 2.0 Consensus size: 78
954243 ATCTACTTTT
* * *
954253 ATTTTTGGGTAAATCACGTGTTTAGTACTTCAACTATCAGTTTTGGTCCATTTTAGTACTTAAAC
1 ATTTTTGGGTAAATCACGTATTTAGTACTTCAACTATCAGTTTTGGTCCATTTTAATACCTAAAC
954318 TTTCAATTTTTCA
66 TTTCAATTTTTCA
**
954331 ATTTTTGGGTAAATTTCGTATTTAGTACTTCAACTATCAGTTTTGGTCCATTTTAATACCTAAAC
1 ATTTTTGGGTAAATCACGTATTTAGTACTTCAACTATCAGTTTTGGTCCATTTTAATACCTAAAC
954396 TTTCAATTTTTCA
66 TTTCAATTTTTCA
954409 A
1 A
954410 AACTATACCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.46
Consensus pattern (78 bp):
ATTTTTGGGTAAATCACGTATTTAGTACTTCAACTATCAGTTTTGGTCCATTTTAATACCTAAAC
TTTCAATTTTTCA
Done.