Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007729.1 Hibiscus syriacus cultivar Beakdansim tig00109980_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: 1111098
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:642889 original size:24 final size:24
Alignment explanation
Indices: 642862--642911 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
642852 AAATAAAAGG
* *
642862 AAAAGAAAAAGAAAGTAA-AAAAAT
1 AAAA-AAAAACAAAATAACAAAAAT
*
642886 AAAAAATAACAAAATAACAAAAAT
1 AAAAAAAAACAAAATAACAAAAAT
642910 AA
1 AA
642912 TAATATGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (24 bp):
AAAAAAAAACAAAATAACAAAAAT
Found at i:643299 original size:60 final size:60
Alignment explanation
Indices: 643201--643313 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
643191 TTAAAGTATA
** * * *
643201 TCGACTATAGGATGTTGCTTTGTTGAGTCCATTGACTATTAAAAATTATAAAACAATCCT
1 TCGACTATAAAATGTTACTTTGTTGAGTCCATTAACTATTAAAAATTACAAAACAATCCT
*
643261 TCGACTATAAAATGTTATTTTGTTGAGT-CATTTAACTATTAAAAATTACAAAA
1 TCGACTATAAAATGTTACTTTGTTGAGTCCA-TTAACTATTAAAAATTACAAAA
643314 TATCACCCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 2 0.04
60 44 0.96
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (60 bp):
TCGACTATAAAATGTTACTTTGTTGAGTCCATTAACTATTAAAAATTACAAAACAATCCT
Found at i:647483 original size:23 final size:23
Alignment explanation
Indices: 647403--647569 Score: 144
Period size: 23 Copynumber: 7.2 Consensus size: 23
647393 TGAACCATTC
* * * *
647403 TTCTTATTCTTCTATAAACACGT
1 TTCTTCTTCTTCCATAAACTCAT
647426 TT-TTGCTTCTTCCATAAA-T-ATT
1 TTCTT-CTTCTTCCATAAACTCA-T
*
647448 TTCTACTTCTTCCATAAACTCAT
1 TTCTTCTTCTTCCATAAACTCAT
* *
647471 TGCTTCTTCTTCCATAAACTCGTTT
1 TTCTTCTTCTTCCATAAACTC--AT
* *
647496 CTTCTTCTTCTTCCATAAACCCCT
1 -TTCTTCTTCTTCCATAAACTCAT
* * *
647520 TTATTCTCCTTCCATAAACCCAT
1 TTCTTCTTCTTCCATAAACTCAT
647543 TTCTTCTTCTTCCATAAAC-CTAT
1 TTCTTCTTCTTCCATAAACTC-AT
647566 TTCT
1 TTCT
647570 CTTTCAATTC
Statistics
Matches: 119, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
22 19 0.16
23 78 0.66
24 2 0.02
25 1 0.01
26 19 0.16
ACGTcount: A:0.22, C:0.29, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCTTCTTCTTCCATAAACTCAT
Found at i:647514 original size:49 final size:49
Alignment explanation
Indices: 647448--647554 Score: 142
Period size: 49 Copynumber: 2.2 Consensus size: 49
647438 CATAAATATT
* * * * * *
647448 TTCTACTTCTTCCATAAACTCATTGCTTCTTCTTCCATAAACTCGTTTC
1 TTCTTCTTCTTCCATAAACCCATTGATTCTCCTTCCATAAACCCATTTC
* *
647497 TTCTTCTTCTTCCATAAACCCCTTTATTCTCCTTCCATAAACCCATTTC
1 TTCTTCTTCTTCCATAAACCCATTGATTCTCCTTCCATAAACCCATTTC
647546 TTCTTCTTC
1 TTCTTCTTC
647555 CATAAACCTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.19, C:0.34, G:0.02, T:0.46
Consensus pattern (49 bp):
TTCTTCTTCTTCCATAAACCCATTGATTCTCCTTCCATAAACCCATTTC
Found at i:648585 original size:21 final size:20
Alignment explanation
Indices: 648561--648611 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
648551 GTATGAACAA
648561 TATCGATACTGAT-TGAAATAG
1 TATCGATACTGATGTG-AA-AG
* *
648582 TATCGATATTGATGTGAAGG
1 TATCGATACTGATGTGAAAG
648602 TATCGATACT
1 TATCGATACT
648612 AAGGGTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 10 0.38
21 14 0.54
22 2 0.08
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (20 bp):
TATCGATACTGATGTGAAAG
Found at i:649176 original size:15 final size:15
Alignment explanation
Indices: 649158--649209 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
649148 ATGTTATATG
649158 TGTGAATGTGTTTTA
1 TGTGAATGTGTTTTA
** *
649173 TGTGAAAATGCTTTA
1 TGTGAATGTGTTTTA
* *
649188 TATGAATGTGTTCTA
1 TGTGAATGTGTTTTA
649203 TGTGAAT
1 TGTGAAT
649210 AGAAGATACA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (15 bp):
TGTGAATGTGTTTTA
Found at i:649358 original size:25 final size:25
Alignment explanation
Indices: 649312--649360 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
649302 AAGTCTAGGG
*
649312 TTCTACGTGGTCATTTGAGACAAAT
1 TTCTACGTGGTCATTAGAGACAAAT
*
649337 TTCTACGTGGTTATTCAG-GACAAA
1 TTCTACGTGGTCATT-AGAGACAAA
649361 CTCTACGCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (25 bp):
TTCTACGTGGTCATTAGAGACAAAT
Found at i:650003 original size:16 final size:17
Alignment explanation
Indices: 649971--650003 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
649961 ATTTTCAACG
649971 AGTTTTCAAAGAGTCAA
1 AGTTTTCAAAGAGTCAA
*
649988 AGTTTTGAAA-AGTCAA
1 AGTTTTCAAAGAGTCAA
650004 TGTGACACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (17 bp):
AGTTTTCAAAGAGTCAA
Found at i:655322 original size:22 final size:22
Alignment explanation
Indices: 655297--655341 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
655287 GTTTTATTTA
* * *
655297 TATTATGGATTATTAGATTTTG
1 TATTATGAACTATTAAATTTTG
*
655319 TATTTTGAACTATTAAATTTTG
1 TATTATGAACTATTAAATTTTG
655341 T
1 T
655342 TTTTCGATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (22 bp):
TATTATGAACTATTAAATTTTG
Found at i:660081 original size:34 final size:31
Alignment explanation
Indices: 660042--660120 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 31
660032 ATGTGAAATG
* *
660042 GTTCTACGCGAATATATGCTATATTTGTAAATAT
1 GTTCTACGTGAATA-ATGCTATATATG--AATAT
*
660076 GTTCTACGTGAA-AATGCTTTATATGAATAT
1 GTTCTACGTGAATAATGCTATATATGAATAT
660106 GTTCTACGTGAATAA
1 GTTCTACGTGAATAA
660121 AAGATACATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.41
31 2 0.05
32 10 0.24
33 1 0.02
34 11 0.27
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (31 bp):
GTTCTACGTGAATAATGCTATATATGAATAT
Found at i:660117 original size:15 final size:15
Alignment explanation
Indices: 660071--660119 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
660061 TATATTTGTA
660071 AATATGTTCTACGTG
1 AATATGTTCTACGTG
* **
660086 AAAATGCTT-TATATG
1 AATATG-TTCTACGTG
660101 AATATGTTCTACGTG
1 AATATGTTCTACGTG
660116 AATA
1 AATA
660120 AAAGATACAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (15 bp):
AATATGTTCTACGTG
Found at i:660346 original size:24 final size:24
Alignment explanation
Indices: 660270--660337 Score: 118
Period size: 24 Copynumber: 2.8 Consensus size: 24
660260 CAGGACAAAG
*
660270 CTATGTGGCACTTCGGTGCATATT
1 CTATGTGGTACTTCGGTGCATATT
*
660294 CTAAGTGGTACTTCGGTGCATATT
1 CTATGTGGTACTTCGGTGCATATT
660318 CTATGTGGTACTTCGGTGCA
1 CTATGTGGTACTTCGGTGCA
660338 AGTTATATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (24 bp):
CTATGTGGTACTTCGGTGCATATT
Found at i:660912 original size:17 final size:16
Alignment explanation
Indices: 660890--660923 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
660880 AATTTTCAAC
660890 AAGTTTTCAAAAAGTCA
1 AAGTTTT-AAAAAGTCA
*
660907 AAGTTTTGAAAAGTCA
1 AAGTTTTAAAAAGTCA
660923 A
1 A
660924 TGTGACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (16 bp):
AAGTTTTAAAAAGTCA
Found at i:664474 original size:21 final size:21
Alignment explanation
Indices: 664448--664489 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
664438 TTGTATTATA
* *
664448 TTTAGGGTTTATATTTTAAAT
1 TTTAGGGTTTAGAATTTAAAT
664469 TTTAGGGTTTAGAATTTAAAT
1 TTTAGGGTTTAGAATTTAAAT
664490 AGATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (21 bp):
TTTAGGGTTTAGAATTTAAAT
Found at i:665610 original size:24 final size:23
Alignment explanation
Indices: 665578--665627 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
665568 TATAATATCA
665578 AAAACATGATTCA-GTAGTATATTGT
1 AAAACATGA-TCATGTAGT-TATT-T
665603 AAAA-ATGATCATGTAGTTATTT
1 AAAACATGATCATGTAGTTATTT
665625 AAA
1 AAA
665628 TCACATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.17
23 7 0.29
24 9 0.38
25 4 0.17
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (23 bp):
AAAACATGATCATGTAGTTATTT
Found at i:668881 original size:2 final size:2
Alignment explanation
Indices: 668874--668904 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
668864 CTAAACCTAA
*
668874 AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
668905 AGAACAGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:672437 original size:33 final size:33
Alignment explanation
Indices: 672395--672460 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
672385 TTTAAACTTC
672395 GTCGTTCGACCTTTATCATCGATTACAACCGTT
1 GTCGTTCGACCTTTATCATCGATTACAACCGTT
672428 GTCGTTCGACCTTTATCATCGATTACAACCGTT
1 GTCGTTCGACCTTTATCATCGATTACAACCGTT
672461 TTAGTACACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (33 bp):
GTCGTTCGACCTTTATCATCGATTACAACCGTT
Found at i:673075 original size:20 final size:20
Alignment explanation
Indices: 673050--673098 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
673040 TCGAAAAGTT
673050 TGAGTCAACTCAGATCGAAA
1 TGAGTCAACTCAGATCGAAA
* *
673070 TGAGTCAACTCGGATCGAAC
1 TGAGTCAACTCAGATCGAAA
673090 TGAGTCAAC
1 TGAGTCAAC
673099 CCGAACTGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (20 bp):
TGAGTCAACTCAGATCGAAA
Found at i:673188 original size:16 final size:17
Alignment explanation
Indices: 673163--673196 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
673153 CTGAGGTGTC
673163 ACATTAACTTTT-CAAA
1 ACATTAACTTTTACAAA
*
673179 ACATTTACTTTTACAAA
1 ACATTAACTTTTACAAA
673196 A
1 A
673197 GAAAGAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (17 bp):
ACATTAACTTTTACAAA
Found at i:673613 original size:18 final size:18
Alignment explanation
Indices: 673586--673626 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
673576 CATCATTTAC
* *
673586 ATTATCATTATTAATCTT
1 ATTATAATTATCAATCTT
*
673604 CTTATAATTATCAATCTT
1 ATTATAATTATCAATCTT
673622 ATTAT
1 ATTAT
673627 GATAAATCCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATAATTATCAATCTT
Found at i:674546 original size:23 final size:24
Alignment explanation
Indices: 674502--674546 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
674492 ACTAGGGCAC
* *
674502 GTAGAAATTGTCCCGAATGACCGT
1 GTAGAAATTCTCCCGAAGGACCGT
674526 GTAGAAA-TCTCCCGAAGGACC
1 GTAGAAATTCTCCCGAAGGACC
674547 ACATATAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (24 bp):
GTAGAAATTCTCCCGAAGGACCGT
Found at i:678473 original size:16 final size:17
Alignment explanation
Indices: 678448--678481 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
678438 CTGAGGTATC
678448 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
*
678464 ACATTTACTTTTACAAA
1 ACATTGACTTTTACAAA
678481 A
1 A
678482 GAAAGAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:681659 original size:65 final size:65
Alignment explanation
Indices: 681505--681670 Score: 203
Period size: 65 Copynumber: 2.6 Consensus size: 65
681495 GTGCACTAAG
* * * *
681505 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTC
1 AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATACATTCGATGTTTTAATAAAATCATC
* * * *
681570 AGTGCATCGGTGCATGGTAT-GTGCATCGATGCATGAAATACATTCGATG-TTTAATTTAATTCA
1 AGTGCATCGATGCATGGT-TGGTGCATCGATGCATCAAATACATTCGATGTTTTAA-TAAAATCA
681633 T-
64 TC
*
681634 AGTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
1 AGTGCATCGATGCATGG-TTGGTGCATCGATGCATCA
681671 CTCTGAAAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
64 21 0.24
65 64 0.74
66 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (65 bp):
AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATACATTCGATGTTTTAATAAAATCATC
Found at i:682104 original size:2 final size:2
Alignment explanation
Indices: 682097--682128 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
682087 GCCAATTGAT
682097 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
682129 GCTACTAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:688119 original size:22 final size:21
Alignment explanation
Indices: 688077--688116 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
688067 GAGTTTATTT
*
688077 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
688098 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
688117 ACAATTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:691283 original size:146 final size:145
Alignment explanation
Indices: 690979--691357 Score: 563
Period size: 146 Copynumber: 2.6 Consensus size: 145
690969 AGGGTTTTTA
* * *
690979 TAAATAAGGTA-TTTATTTA-TTAAAAATATC-GTAAAAAGAAATCTAGTTACTTTAAGACAGTC
1 TAAATATGGTATTTTATTTATTTAAAAATATCAG-AAAAAGAAATCTAGTTACCTTAAGACA-AC
*
691041 TCTTTCTTTAATATT-AAAAATAAATAAATATTAATAAGAATATGATAATTTTCCTAAAAAATAT
64 CCTTTC-TTAATATTAAAAAATAAATAAATATTAATAAGAATATGATAATTTTCCT-AAAAATAT
691105 AATTTAAATAAAACTAAAT
127 AATTTAAATAAAACTAAAT
* *
691124 TAAATATAGTATTTTATTTATTTAAAAATATCAGAAAAAGATATCTAGTTACCTTAAGACAACCC
1 TAAATATGGTATTTTATTTATTTAAAAATATCAGAAAAAGAAATCTAGTTACCTTAAGACAA-CC
691189 CTTTCTTAATATTAAAAAATAAATAAATATTAATAAGAATATGATAATTTTTCCT-AAAATATAA
65 CTTTCTTAATATTAAAAAATAAATAAATATTAATAAGAATATGATAA-TTTTCCTAAAAATATAA
691253 TTTAAATAAAACTAAAT
129 TTTAAATAAAACTAAAT
* * * **
691270 TAAATATGGTATTTTATTTATTTAAAAATATAAGTAAAGGGCATCTAGTTACCTTAAGACAACCC
1 TAAATATGGTATTTTATTTATTTAAAAATATCAGAAAAAGAAATCTAGTTACCTTAAGACAACCC
691335 TTTCTTAATA-TAAAAAATAAATA
66 TTTCTTAATATTAAAAAATAAATA
691358 CTATTATTTA
Statistics
Matches: 216, Mismatches: 12, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
144 13 0.06
145 22 0.10
146 98 0.45
147 75 0.35
148 8 0.04
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.37
Consensus pattern (145 bp):
TAAATATGGTATTTTATTTATTTAAAAATATCAGAAAAAGAAATCTAGTTACCTTAAGACAACCC
TTTCTTAATATTAAAAAATAAATAAATATTAATAAGAATATGATAATTTTCCTAAAAATATAATT
TAAATAAAACTAAAT
Found at i:692538 original size:3 final size:3
Alignment explanation
Indices: 692532--692576 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
692522 ATTTATTATT
* *
692532 TAA TAA TAA TAA TATA TAA TAA TGA TAA TGA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
692577 GGACAAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:695962 original size:17 final size:18
Alignment explanation
Indices: 695936--695974 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
695926 CTAATATCTG
695936 AAAATCAATAAAAT-ATA
1 AAAATCAATAAAATAATA
* *
695953 AAAATTAATACAATAATA
1 AAAATCAATAAAATAATA
695971 AAAA
1 AAAA
695975 AATTGAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATCAATAAAATAATA
Found at i:696897 original size:145 final size:145
Alignment explanation
Indices: 696549--696930 Score: 544
Period size: 145 Copynumber: 2.6 Consensus size: 145
696539 TTAGGATTTT
* ** * *
696549 ATAAATA-AGGTATTTATTTATTAAAAAATATCAGAAAATGGTATCTAGTTACTTTAAGACAAAC
1 ATAAATATA-GTATTTATTTATTTAAAAATATCAGAAAATGACATCTAGTTACCTTAAGACAACC
* * * *
696613 CATTTATTTAATATT--AAAATAAAT-AA-ATAATAATAATATGATAATTTTTCATAAAAAATAT
65 CCTTT-CTTAATATTAAAAAATAAATAAATATAATAAGAATATGATAATTTTTCATAAAAAACAT
696674 AATTTAAATAAAACAAA
129 AATTTAAATAAAACAAA
*
696691 ATAAATATAGTATTTTATTTATTTAAAAATATCAAAAAATGACATCTAGTTACCTTAAGACAACC
1 ATAAATATAGTA-TTTATTTATTTAAAAATATCAGAAAATGACATCTAGTTACCTTAAGACAACC
*
696756 CCTTTCTTAATATTAAAAAATAAATAAATATTAATAAGAATATGATAATTTTTCCT-AAAAACAT
65 CCTTTCTTAATATTAAAAAATAAATAAATA-TAATAAGAATATGATAATTTTTCATAAAAAACAT
696820 AATTTAAATAAAACTAAA
129 AATTTAAATAAAAC-AAA
* * *
696838 TTAAATATAGTATTT-TTTATTTAAAAATATCAGAAAATGACATCTATTTACCTTAAGACAACCT
1 ATAAATATAGTATTTATTTATTTAAAAATATCAGAAAATGACATCTAGTTACCTTAAGACAACCC
696902 CTTTCTTAATATTAAAAAATAAATAAATA
66 CTTTCTTAATATTAAAAAATAAATAAATA
696931 CTATTATTTA
Statistics
Matches: 217, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
142 18 0.08
143 51 0.24
144 9 0.04
145 77 0.35
146 25 0.12
147 37 0.17
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (145 bp):
ATAAATATAGTATTTATTTATTTAAAAATATCAGAAAATGACATCTAGTTACCTTAAGACAACCC
CTTTCTTAATATTAAAAAATAAATAAATATAATAAGAATATGATAATTTTTCATAAAAAACATAA
TTTAAATAAAACAAA
Found at i:698276 original size:3 final size:3
Alignment explanation
Indices: 698270--698313 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
698260 ATTTATTATT
* * *
698270 TAA TAA TAA TAA T-A TAA TAA CAA TAA TGA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
698314 AAACGGGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:704429 original size:3 final size:3
Alignment explanation
Indices: 704421--704479 Score: 91
Period size: 3 Copynumber: 19.3 Consensus size: 3
704411 CTTCACGCAA
704421 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTCC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C
* *
704467 TTG ATC TTC TTC T
1 TTC TTC TTC TTC T
704480 CTCCTTTAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.02, C:0.32, G:0.02, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:706820 original size:31 final size:31
Alignment explanation
Indices: 706785--706863 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
706775 GGTAGAATTA
* *
706785 ATATTTTAT-TGAAAGTTTAGGAATCAAACTG
1 ATATTTTATCT-AAAGTTTAAGAATCAAAATG
* * * *
706816 ATATTATATCTAAACTTTAATAGTCAAAATG
1 ATATTTTATCTAAAGTTTAAGAATCAAAATG
706847 ATATTTTATCTAAAGTT
1 ATATTTTATCTAAAGTT
706864 CATAGATCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (31 bp):
ATATTTTATCTAAAGTTTAAGAATCAAAATG
Found at i:706874 original size:31 final size:32
Alignment explanation
Indices: 706807--706874 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
706797 AAGTTTAGGA
* *
706807 ATCAAACTGATATTATATCTAAACTTTAATAG
1 ATCAAAATGATATTATATCTAAACGTTAATAG
* *
706839 -TCAAAATGATATTTTATCTAAA-GTTCATAG
1 ATCAAAATGATATTATATCTAAACGTTAATAG
706869 ATCAAA
1 ATCAAA
706875 TTAAAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (32 bp):
ATCAAAATGATATTATATCTAAACGTTAATAG
Found at i:711813 original size:2 final size:2
Alignment explanation
Indices: 711806--711844 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
711796 ATCGTTGTGA
711806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
711845 AAGTTTAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:717898 original size:13 final size:14
Alignment explanation
Indices: 717880--717922 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
717870 ACTTTATTTT
717880 ATTATTATTATT-C
1 ATTATTATTATTGC
*
717893 ATTATTATTGTATTGT
1 ATTATTA-T-TATTGC
717909 ATTATTATTATTGC
1 ATTATTATTATTGC
717923 TATTTGCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 5 0.20
16 7 0.28
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (14 bp):
ATTATTATTATTGC
Found at i:717899 original size:16 final size:17
Alignment explanation
Indices: 717878--717920 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
717868 AAACTTTATT
717878 TTATTATTATTATT-CA
1 TTATTATTATTATTGCA
* *
717894 TTATTATT-GTATTGTA
1 TTATTATTATTATTGCA
717910 TTATTATTATT
1 TTATTATTATT
717921 GCTATTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 4 0.18
16 17 0.77
17 1 0.05
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (17 bp):
TTATTATTATTATTGCA
Found at i:717915 original size:19 final size:21
Alignment explanation
Indices: 717888--717926 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
717878 TTATTATTAT
717888 TATTCATTATTATTG-TATTG
1 TATTCATTATTATTGCTATTG
717908 TATT-ATTATTATTGCTATT
1 TATTCATTATTATTGCTATT
717927 TGCATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (21 bp):
TATTCATTATTATTGCTATTG
Found at i:720953 original size:19 final size:19
Alignment explanation
Indices: 720912--720955 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
720902 ACTTGGTATT
720912 TTTTTAGTAAAATAAAATG
1 TTTTTAGTAAAATAAAATG
* *
720931 -TTTTATTAAAATAACATG
1 TTTTTAGTAAAATAAAATG
720949 TTTTTAG
1 TTTTTAG
720956 GTGTTCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (19 bp):
TTTTTAGTAAAATAAAATG
Found at i:726147 original size:20 final size:20
Alignment explanation
Indices: 726122--726162 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
726112 GCAAAATGGG
*
726122 TATCGATACTGCTACAGTAA
1 TATCGATACTACTACAGTAA
726142 TATCGATACTACTACAGTAA
1 TATCGATACTACTACAGTAA
726162 T
1 T
726163 TTCAAGCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (20 bp):
TATCGATACTACTACAGTAA
Found at i:727702 original size:17 final size:18
Alignment explanation
Indices: 727675--727708 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
727665 GAGGGGATGA
727675 AGATGATGATGAACAAGG
1 AGATGATGATGAACAAGG
*
727693 AGATGA-GATGACCAAG
1 AGATGATGATGAACAAG
727709 CTCTTCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.09, G:0.32, T:0.15
Consensus pattern (18 bp):
AGATGATGATGAACAAGG
Found at i:729510 original size:20 final size:20
Alignment explanation
Indices: 729485--729524 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
729475 TGCAAAATAG
729485 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
729505 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
729525 ATTTCAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:732916 original size:20 final size:20
Alignment explanation
Indices: 732831--732907 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
732821 AAAATGTTTT
732831 TATGAATAGTACCGATATTG
1 TATGAATAGTACCGATATTG
732851 TATGAATAGTACCGATATTG
1 TATGAATAGTACCGATATTG
732871 TATGAATAGTACCGATATTG
1 TATGAATAGTACCGATATTG
*
732891 TATGAATAGTAACGATA
1 TATGAATAGTACCGATA
732908 CTATGTGAAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGAATAGTACCGATATTG
Found at i:732990 original size:20 final size:20
Alignment explanation
Indices: 732965--733045 Score: 144
Period size: 20 Copynumber: 4.0 Consensus size: 20
732955 GTAAAATAGG
732965 TATCGATACTGCTACAGTAA
1 TATCGATACTGCTACAGTAA
732985 TATCGATACTGCTACAGTAA
1 TATCGATACTGCTACAGTAA
* *
733005 TATCGATATTGCTACAGTAG
1 TATCGATACTGCTACAGTAA
733025 TATCGATACTGCTACAGTAA
1 TATCGATACTGCTACAGTAA
733045 T
1 T
733046 TTCAAGCCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (20 bp):
TATCGATACTGCTACAGTAA
Found at i:736407 original size:20 final size:20
Alignment explanation
Indices: 736342--736398 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
736332 AAAATGTTTT
736342 TATGAATAGTACCGATATTG
1 TATGAATAGTACCGATATTG
736362 TATGAATAGTACCGATATTG
1 TATGAATAGTACCGATATTG
*
736382 TATGAATAATACCGATA
1 TATGAATAGTACCGATA
736399 CTGTGTGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (20 bp):
TATGAATAGTACCGATATTG
Found at i:736481 original size:20 final size:20
Alignment explanation
Indices: 736456--736495 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
736446 TGCAAAATAG
736456 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
736476 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
736496 ATTTCAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:738029 original size:17 final size:18
Alignment explanation
Indices: 737994--738029 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
737984 TGAGGGGGAT
737994 GAAGATGATGATGAACAA
1 GAAGATGATGATGAACAA
*
738012 GAAGATGA-GATGACCAA
1 GAAGATGATGATGAACAA
738029 G
1 G
738030 CTCCTAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.47, C:0.08, G:0.31, T:0.14
Consensus pattern (18 bp):
GAAGATGATGATGAACAA
Found at i:739862 original size:20 final size:20
Alignment explanation
Indices: 739797--739853 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
739787 AAAATGTTTT
739797 TATGAATAGTACCGATATTG
1 TATGAATAGTACCGATATTG
739817 TATGAATAGTACCGATATTG
1 TATGAATAGTACCGATATTG
739837 TATGAATAGTACCGATA
1 TATGAATAGTACCGATA
739854 ATGTGTGAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGAATAGTACCGATATTG
Found at i:739935 original size:20 final size:20
Alignment explanation
Indices: 739910--739949 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
739900 TGCAAAATAG
*
739910 GTATCGATACTGCTACAGTA
1 GTATCGATACTACTACAGTA
739930 GTATCGATACTACTACAGTA
1 GTATCGATACTACTACAGTA
739950 ATTTCAAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (20 bp):
GTATCGATACTACTACAGTA
Found at i:741006 original size:3 final size:3
Alignment explanation
Indices: 740998--741076 Score: 135
Period size: 3 Copynumber: 27.0 Consensus size: 3
740988 TTGCTTATAT
740998 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
741046 TTA TTA TTA TTA -TG TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
741077 AATAATAAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 3 0.04
3 69 0.96
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:742854 original size:17 final size:18
Alignment explanation
Indices: 742832--742866 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
742822 TAAATAAAAA
742832 ATAAATAT-TTTTAATAT
1 ATAAATATGTTTTAATAT
*
742849 ATAAATATGTTTTTATAT
1 ATAAATATGTTTTAATAT
742867 TATTTTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATAAATATGTTTTAATAT
Found at i:742901 original size:24 final size:26
Alignment explanation
Indices: 742836--742903 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 26
742826 TAAAAAATAA
742836 ATATTTTTAATATATAAATATGTTTTT
1 ATATTTTTAATAT-TAAATATGTTTTT
**
742863 ATATTATTTTCTATTAAA-AT-TTATTT
1 ATATT-TTTAATATTAAATATGTT-TTT
742889 AT-TTTTTAATATTAA
1 ATATTTTTAATATTAA
742904 TAAAGGAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
24 9 0.26
25 4 0.11
26 7 0.20
27 9 0.26
28 6 0.17
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (26 bp):
ATATTTTTAATATTAAATATGTTTTT
Found at i:743014 original size:11 final size:13
Alignment explanation
Indices: 742977--743016 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
742967 TGTTTAATAA
742977 AATATA-TATATT
1 AATATATTATATT
*
742989 AATATATTATCTT
1 AATATATTATATT
743002 AA-A-ATTATATT
1 AATATATTATATT
743013 AATA
1 AATA
743017 AACTTAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:745727 original size:20 final size:20
Alignment explanation
Indices: 745682--745727 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
745672 AAAATGTTTT
* *
745682 TATGAATAGTCCCGATATTG
1 TATGAATAGTACCGATACTG
745702 TATGAATAGTACCGATACTG
1 TATGAATAGTACCGATACTG
*
745722 TGTGAA
1 TATGAA
745728 CAGTTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (20 bp):
TATGAATAGTACCGATACTG
Found at i:745800 original size:20 final size:20
Alignment explanation
Indices: 745775--745834 Score: 120
Period size: 20 Copynumber: 3.0 Consensus size: 20
745765 TGCAAAATAG
745775 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
745795 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
745815 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
745835 ATTTCAAGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:746885 original size:3 final size:3
Alignment explanation
Indices: 746879--746923 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
746869 CATTTGCTTA
*
746879 TAT TAT TAT TAT TAT TAT TAT TAT TA- TGT TA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
746924 AATAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 3 0.08
3 35 0.92
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:748859 original size:11 final size:13
Alignment explanation
Indices: 748822--748861 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
748812 TGTTTAATAA
748822 AATATA-TATATT
1 AATATATTATATT
*
748834 AATATATTATCTT
1 AATATATTATATT
748847 AA-A-ATTATATT
1 AATATATTATATT
748858 AATA
1 AATA
748862 AACTTAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:751574 original size:20 final size:20
Alignment explanation
Indices: 751530--751574 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
751520 AAATGTTTTA
*
751530 ATGAATAGTACCGATATTGT
1 ATGAATAGTACCGATACTGT
751550 ATGAATAGTACCGATACTGT
1 ATGAATAGTACCGATACTGT
*
751570 GTGAA
1 ATGAA
751575 CAGTTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGAATAGTACCGATACTGT
Found at i:751647 original size:20 final size:20
Alignment explanation
Indices: 751622--751661 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
751612 TGCAAAATAG
751622 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
751642 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
751662 ATTTCAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:754684 original size:11 final size:13
Alignment explanation
Indices: 754647--754686 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
754637 TGTTTAATAA
754647 AATATA-TATATT
1 AATATATTATATT
*
754659 AATATATTATCTT
1 AATATATTATATT
754672 AA-A-ATTATATT
1 AATATATTATATT
754683 AATA
1 AATA
754687 AACTTAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:757416 original size:20 final size:20
Alignment explanation
Indices: 757352--757421 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
757342 AAAATGTTTT
*
757352 TATGAATAATATTG-TACTG
1 TATGAATAGTATTGATACTG
*** *
757371 TATGAATAGTACCAATATTG
1 TATGAATAGTATTGATACTG
757391 TATGAATAGTATTGATACTG
1 TATGAATAGTATTGATACTG
*
757411 TGTGAATAGTA
1 TATGAATAGTA
757422 ATAAACATTA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.39
Consensus pattern (20 bp):
TATGAATAGTATTGATACTG
Found at i:757489 original size:20 final size:20
Alignment explanation
Indices: 757464--757503 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
757454 TGCAAAATGG
757464 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
757484 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
757504 ATTTCAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:763596 original size:12 final size:13
Alignment explanation
Indices: 763579--763621 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
763569 TATTATGCTT
763579 AAAAAGAAAAT-A
1 AAAAAGAAAATGA
*
763591 AAAAAGAAGATGA
1 AAAAAGAAAATGA
*
763604 AAAAATGAAAAAGA
1 AAAAA-GAAAATGA
763618 AAAA
1 AAAA
763622 TTGAAAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 10 0.38
13 6 0.23
14 10 0.38
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (13 bp):
AAAAAGAAAATGA
Found at i:765130 original size:119 final size:116
Alignment explanation
Indices: 764755--765122 Score: 397
Period size: 119 Copynumber: 3.1 Consensus size: 116
764745 TTCTACAAAT
* *
764755 TCAATT-CATCGCAGAAGGAGGTGGACCATCATTTCCAATGGAAGAGTTCATAATGAGAAGAA-C
1 TCAATTCCATCACAGAAGGAGGTGGATCATCATTTCCAAT-GAAGAGTTCATAATGAGAAGAATC
* * * *
764818 TTGTCTGAAGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCGACCTTTTGC
65 TT-TC-GAAGAGGAAGAAG-AGTTCATAATGAGAAGAACTTGTTCGACTTTTTAC
* * * *
764873 TCAAAATTCC-TCACAGAATGAGGTGGATCAACATTTTCAATGTAGAGTTCATAATGAGAAGAAC
1 TC--AATTCCATCACAGAAGGAGGTGGATCATCATTTCCAATGAAGAGTTCATAATGAGAAGAA-
* * *
764937 TCTTCCGAAGAGGGATGATA-AGTTCATAATGATAAGAACTTGTTCGA-TCTTTTAC
63 TCTTTCGAAGA-GGAAGA-AGAGTTCATAATGAGAAGAACTTGTTCGACT-TTTTAC
* * *
764992 TCAAATCCACCACAGAAGGAGGTGGATCGTCATTTCCAATGAA-ATGGTTCATAATGAGAAGAAT
1 TCAATTCCATCACAGAAGGAGGTGGATCATCATTTCCAATGAAGA--GTTCATAATGAGAAGAA-
* * *
765056 TCTTTCGAAGAGGAAGAAGCAGTTCATAATGAGAATAACTTGTTCAACTTTTTTC
63 TCTTTCGAAGAGGAAGAAG-AGTTCATAATGAGAAGAACTTGTTCGACTTTTTAC
765111 TCAATTCCATCA
1 TCAATTCCATCA
765123 AAAAAGGATG
Statistics
Matches: 207, Mismatches: 29, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
117 7 0.03
118 35 0.17
119 124 0.60
120 36 0.17
121 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (116 bp):
TCAATTCCATCACAGAAGGAGGTGGATCATCATTTCCAATGAAGAGTTCATAATGAGAAGAATCT
TTCGAAGAGGAAGAAGAGTTCATAATGAGAAGAACTTGTTCGACTTTTTAC
Found at i:765409 original size:3 final size:3
Alignment explanation
Indices: 765395--765469 Score: 52
Period size: 3 Copynumber: 26.7 Consensus size: 3
765385 ATAACCATTT
* * * *
765395 TTA TTA TCA TTA TTA TTA TTA TTA GTA TTA TT- TTT TTA TT- TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
765441 TT- TTT TTA TT- TTA TT- GTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
765470 GCTATTTGCA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
2 9 0.16
3 47 0.84
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:765438 original size:7 final size:8
Alignment explanation
Indices: 765422--765452 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
765412 ATTATTAGTA
765422 TTATTTTT
1 TTATTTTT
765430 TTATTTTT
1 TTATTTTT
765438 TTATTTTT
1 TTATTTTT
765446 TTATTTT
1 TTATTTT
765453 ATTGTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTATTTTT
Found at i:768781 original size:16 final size:16
Alignment explanation
Indices: 768760--768794 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
768750 GTTGTCAATT
768760 TATTATTTATGTTACA
1 TATTATTTATGTTACA
* *
768776 TATTATTTTTGTTATA
1 TATTATTTATGTTACA
768792 TAT
1 TAT
768795 AAATTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (16 bp):
TATTATTTATGTTACA
Found at i:769776 original size:45 final size:45
Alignment explanation
Indices: 769700--769827 Score: 145
Period size: 45 Copynumber: 2.8 Consensus size: 45
769690 GCATCGGTGC
* * * * *
769700 ACTAAGAGTGCACCGATGCATGAAGTACATTCGATGTTTCA-AAA
1 ACTATGAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAA
*
769744 TAGC-ATGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA
1 -A-CTATGAGTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAA
*
769791 ACTCTGAGTG-ATCGATGCATAAAATGCATTCGATGTT
1 ACTATGAGTGCATCGATGCATAAAATGCATTCGATGTT
769828 CAATTTATTC
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
44 2 0.03
45 54 0.75
46 13 0.18
47 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (45 bp):
ACTATGAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAA
Found at i:770126 original size:10 final size:9
Alignment explanation
Indices: 770111--770198 Score: 61
Period size: 10 Copynumber: 9.1 Consensus size: 9
770101 ACAATATTTA
770111 TTATTTTGTT
1 TTATTTT-TT
770121 TTATTTATTT
1 TTATTT-TTT
*
770131 TTCTTTATTT
1 TTATTT-TTT
770141 TTATTTTTAT
1 TTATTTTT-T
*
770151 TT-TTATTT
1 TTATTTTTT
770159 TTATTTTCTT
1 TTATTTT-TT
* *
770169 TTATCTTAT
1 TTATTTTTT
770178 TTATTTATTT
1 TTATTT-TTT
*
770188 GTTGTTTTTT
1 -TTATTTTTT
770198 T
1 T
770199 CCTTTTTGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.05
9 16 0.25
10 38 0.60
11 6 0.10
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (9 bp):
TTATTTTTT
Found at i:770145 original size:6 final size:6
Alignment explanation
Indices: 770119--770165 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
770109 TATTATTTTG
*
770119 TTTTAT TTATTTT TCTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TT-TTAT T-TTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
770166 CTTTTATCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 28 0.76
7 8 0.22
8 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:771192 original size:23 final size:22
Alignment explanation
Indices: 771165--771241 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
771155 GCATGGCCTT
*
771165 GTGCATCAATGCACATTCAAAG
1 GTGCATCGATGCACATTCAAAG
* * *
771187 AGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAAG
*
771209 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTCAAA-G
771232 GATGCATCGA
1 G-TGCATCGA
771242 GGCATTGTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 15 0.36
22 3 0.07
23 17 0.40
24 7 0.17
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAAG
Found at i:777005 original size:65 final size:64
Alignment explanation
Indices: 776845--777025 Score: 206
Period size: 65 Copynumber: 2.8 Consensus size: 64
776835 CATTGGAACA
* * * * *
776845 CTTAGTGCATCGGTGCACTAAGA-GTGCATCGATGCATGAAGTGCATTCGATGTTTCAAAATAGC
1 CTTAGTGCATCGATGCA-TGATATGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGC
* * * * *
776909 CTGAGTGCATCGATGCATG-TCTTGTGTATCGATGCTTCAAATGCATTCGATGTTTTCATAAA-A
1 CTTAGTGCATCGATGCATGAT-ATGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATA
*
776972 TC
63 GC
776974 CTTAGTGCATCGATGCATGATATGTGCATCGATGCATAAAATGCATTCGATG
1 CTTAGTGCATCGATGCATGATATGTGCATCGATGCATAAAATGCATTCGATG
777026 CTCAATTTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
63 1 0.01
64 40 0.41
65 52 0.54
66 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (64 bp):
CTTAGTGCATCGATGCATGATATGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGC
Found at i:777067 original size:20 final size:20
Alignment explanation
Indices: 777038--777075 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
777028 CAATTTATTC
777038 ATTGGCGCATCGATGCATGG
1 ATTGGCGCATCGATGCATGG
*
777058 ATTGGTGCATCGATGCAT
1 ATTGGCGCATCGATGCAT
777076 TCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (20 bp):
ATTGGCGCATCGATGCATGG
Found at i:778153 original size:18 final size:18
Alignment explanation
Indices: 778132--778184 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
778122 TAAATTAAAA
*
778132 CAATTAAAATTAAAGAAT
1 CAATTAAAATTAAAGAAG
**
778150 CAA-TAAACATGCAAGAAG
1 CAATTAAA-ATTAAAGAAG
*
778168 GAATTAAAATTAAAGAA
1 CAATTAAAATTAAAGAA
778185 ACAAAATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 4 0.15
18 19 0.70
19 4 0.15
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.21
Consensus pattern (18 bp):
CAATTAAAATTAAAGAAG
Found at i:779771 original size:121 final size:120
Alignment explanation
Indices: 779533--779798 Score: 374
Period size: 121 Copynumber: 2.2 Consensus size: 120
779523 TAGCAAAGTT
*
779533 TTGAACAAGTTCTTCTCATTATGAACTTCTCTCATAAATATTGACCCAACTCCTTATGTGATGGA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTCTAATAAATATTGACCCAACTCCTTATGTGATGGA
* * * * ***
779598 ATCAATCGTAGTGTTGGCACTGATCCAACTCCTTGTGTGATGAATCGTGCTAAGG
66 ATCAATCATAGTGTTGGCACTGATCCAACTACTTATGCGATGAATAAAGCTAAGG
* * * * *
779653 TTGAACAAGTTCTTCTCATTATGAACTTCT-TAATTGGAAATGTTGATCCACCTCTTTTTGTGAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTCTAA-T--AAATATTGACCCAACTCCTTATGTGAT
779717 GGAATCAA-CATAGTGTTGGCACTGATCCAACTACTTATGCGATGAATAAAGCTAAGG
63 GGAATCAATCATAGTGTTGGCACTGATCCAACTACTTATGCGATGAATAAAGCTAAGG
779774 TTGAACAAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAA
779799 ATTTTTCTCC
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
119 2 0.02
120 31 0.24
121 67 0.52
122 30 0.23
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (120 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTCTAATAAATATTGACCCAACTCCTTATGTGATGGA
ATCAATCATAGTGTTGGCACTGATCCAACTACTTATGCGATGAATAAAGCTAAGG
Found at i:780281 original size:283 final size:283
Alignment explanation
Indices: 779737--780330 Score: 766
Period size: 283 Copynumber: 2.1 Consensus size: 283
779727 TAGTGTTGGC
* * * ** * * *
779737 ACTGATCCAACTACTTATGCGAT-GAATAAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAAAT
1 ACTGTTCCAACTTCTTATGTGATGGAATCGAGCTAAGGTTAAACAAGGTCTTATCATTATGAAAT
* * * ** *
779801 TTTTCTCCTTCATCGGATAAATTCTTCTCGTTAAGAACCCTTCTATTGGAAATGTTGATCCACCT
66 TTTTCTCCTTCATCAGATAAATTATTCTCATTAAGAACAATTCTATTGGAAATATTGATCCACCT
*
779866 CCTTCTATGATGAAATCGAGTGAAATATTGAACGAGCTCTTCTCATTAGGAACTTATTCATTGGA
131 CCTTCTATGATGAAATCGAGTGAAATATTGAACAAGCTCTTCTCATTAGGAACTTATTCATTGGA
*
779931 AATGTTGATTCACCTCCTTCTATGATGGATTCGAACAAAGTGATGATGCTGATCCAACTCCTTAT
196 AATGTTGATTCACCTCCTTCTATGATGGATTCGAACAAAGTGATAATGCTGATCCAACTCCTTAT
*
779996 GTGATGGATGAGCCAAGGTCGGT
261 GTGATGGATGAGCCAAGGTCAGT
* ** *
780019 ACTGTTCCAACTTCTTTTGTGATGGAATCGAGCTAAGGTTAAACAAGGTCTTATTGTTATGAACT
1 ACTGTTCCAACTTCTTATGTGATGGAATCGAGCTAAGGTTAAACAAGGTCTTATCATTATGAAAT
* * * * *
780084 TTTTCTCACTT-ATCAGATGAGTTATTCTCATTACGAACAATTCCT-TTGGAATTATTGATTCAC
66 TTTTCTC-CTTCATCAGATAAATTATTCTCATTAAGAACAATT-CTATTGGAAATATTGATCCAC
* * * *
780147 CTCCTTC-AGTGATGAAATCGAGTGAAATGTTGAACAAGTTCTTCTCATTATGAACTTCTTCATT
129 CTCCTTCTA-TGATGAAATCGAGTGAAATATTGAACAAGCTCTTCTCATTAGGAACTTATTCATT
* * ** **
780211 GGAAATGTTGA-TCTACCTCCTTCTGTGATGGATTCGAACAAAGTGATAATGTTGATCCAGGTGT
193 GGAAATGTTGATTC-ACCTCCTTCTATGATGGATTCGAACAAAGTGATAATGCTGATCCAACTCC
*
780275 TTATGTGATGGATGAGCCAAGGTTAGT
257 TTATGTGATGGATGAGCCAAGGTCAGT
**
780302 GTTGTTCCAACTTCTTATGTGATGGAATC
1 ACTGTTCCAACTTCTTATGTGATGGAATC
780331 AAGTAAATGT
Statistics
Matches: 267, Mismatches: 40, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
282 22 0.08
283 240 0.90
284 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (283 bp):
ACTGTTCCAACTTCTTATGTGATGGAATCGAGCTAAGGTTAAACAAGGTCTTATCATTATGAAAT
TTTTCTCCTTCATCAGATAAATTATTCTCATTAAGAACAATTCTATTGGAAATATTGATCCACCT
CCTTCTATGATGAAATCGAGTGAAATATTGAACAAGCTCTTCTCATTAGGAACTTATTCATTGGA
AATGTTGATTCACCTCCTTCTATGATGGATTCGAACAAAGTGATAATGCTGATCCAACTCCTTAT
GTGATGGATGAGCCAAGGTCAGT
Found at i:780950 original size:17 final size:18
Alignment explanation
Indices: 780913--780950 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
780903 GGTGGGAATG
* *
780913 ATTGCATGAGCAGTCTTC
1 ATTGCAAGAGCAGTATTC
780931 ATTGCAAGAGCA-TATTC
1 ATTGCAAGAGCAGTATTC
780948 ATT
1 ATT
780951 CTCTTCCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
ATTGCAAGAGCAGTATTC
Found at i:781727 original size:54 final size:54
Alignment explanation
Indices: 781651--782191 Score: 788
Period size: 54 Copynumber: 10.1 Consensus size: 54
781641 TACAATTATT
* * *
781651 ATCAAGAAACCCCTAAAAATTAGACTTAGCTTCTTTAAAAATTTATTT-AAAGAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAA-AC
* *
781705 ATCAAGAAAGCCCTAAAAATTAGGCTTAGCTCCTTT-AAATATTCATTTGAAAAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAA-ATTCATTTGAAAAC
* *
781759 ATCAAGAAA-CCCTAAAAATTAGGCTTAGATTCTTTCAAAATTCATTTGAAAAT
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAAC
*
781812 ATCAAGAAATCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAAC
* *
781866 ATCAAGAAACCCCTAAAAATTAGGCTTAGATTCTTTCGAAATTCATTTGAAAAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAAC
* * *
781920 ATC-A-AAACCCCTAAAAATTAGGCTTAACATCTTTTAAAATTCATTTGAAAAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAAC
** *
781972 ATCAAGAAACCCCTAAAAATTAAACTTAGCTTCTTTCTAAATTCATTTGAAAAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAAC
* * * * *
782026 ATCAGGAAACTCCTAAAAGTTAGGGTTAGTTTCTTTCAAAATTCATTT-AAAGAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAA-AC
* * *
782080 ATAAAGAAACCCCTGAAAATTAGGCTTAGCTTCTTTCAAAATTTATTTGAAAAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAAC
*
782134 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAGAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAAC
782188 ATCA
1 ATCA
782192 TATTGTTTGG
Statistics
Matches: 436, Mismatches: 43, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
52 46 0.11
53 54 0.12
54 330 0.76
55 6 0.01
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (54 bp):
ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAAC
Found at i:782133 original size:268 final size:267
Alignment explanation
Indices: 781657--782191 Score: 815
Period size: 268 Copynumber: 2.0 Consensus size: 267
781647 TATTATCAAG
* * * *
781657 AAACCCCTAAAAATTAGACTTAGCTTCTTTAAAAATTTATTTAAAGACATCAAGAAAGCCCTAAA
1 AAACCCCTAAAAATTAGACTTAACATCTTTAAAAATTCATTTAAAGACATCAAGAAACCCCTAAA
**
781722 AATTAGGCTTAGCTCCTTTAAATATTCATTTGAAAACATCAAGAAACCCTAAAAATTAGGCTTAG
66 AATTAAACTTAGCTCCTTTAAATATTCATTTGAAAACATCAAGAAACCCTAAAAATTAGGCTTAG
* * *
781787 ATTCTTTCAAAATTCATTTGAAAATATCAAGAAATCCCTAAAAATTAGGCTTAGCTTCTTTCAAA
131 ATTCTTTCAAAATTCATTTGAAAACATAAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAA
*
781852 ATTCATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAGATTCTTTCGAAATTCATTTGAA
196 ATTCATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAGATTCTTTCAAAATTCATTTGAA
781917 AACATCA
261 AACATCA
* *
781924 AAACCCCTAAAAATTAGGCTTAACATCTTTTAAAATTCATTTGAAA-ACATCAAGAAACCCCTAA
1 AAACCCCTAAAAATTAGACTTAACATCTTTAAAAATTCATTT-AAAGACATCAAGAAACCCCTAA
* * * * *
781988 AAATTAAACTTAGCTTCTTTCTAA-ATTCATTTGAAAACATCAGGAAACTCCTAAAAGTTAGGGT
65 AAATTAAACTTAGCTCCTTT-AAATATTCATTTGAAAACATCAAGAAAC-CCTAAAAATTAGGCT
* *
782052 TAGTTTCTTTCAAAATTCATTT-AAAGACATAAAGAAACCCCTGAAAATTAGGCTTAGCTTCTTT
128 TAGATTCTTTCAAAATTCATTTGAAA-ACATAAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT
* *
782116 CAAAATTTATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATT
192 CAAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAGATTCTTTCAAAATTCATT
*
782181 TGAAGACATCA
257 TGAAAACATCA
782192 TATTGTTTGG
Statistics
Matches: 242, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
267 97 0.40
268 145 0.60
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (267 bp):
AAACCCCTAAAAATTAGACTTAACATCTTTAAAAATTCATTTAAAGACATCAAGAAACCCCTAAA
AATTAAACTTAGCTCCTTTAAATATTCATTTGAAAACATCAAGAAACCCTAAAAATTAGGCTTAG
ATTCTTTCAAAATTCATTTGAAAACATAAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAA
ATTCATTTGAAAACATCAAGAAACCCCTAAAAATTAGGCTTAGATTCTTTCAAAATTCATTTGAA
AACATCA
Found at i:786319 original size:16 final size:16
Alignment explanation
Indices: 786298--786335 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
786288 AATATATAAA
786298 ATGTGAA-AAATGATCT
1 ATGTGAATAAATG-TCT
786314 ATGTGAATAAATGTCT
1 ATGTGAATAAATGTCT
*
786330 TTGTGA
1 ATGTGA
786336 TAAGCTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (16 bp):
ATGTGAATAAATGTCT
Found at i:786458 original size:23 final size:23
Alignment explanation
Indices: 786424--786477 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
786414 GAGTCGAGGG
*
786424 TTCTACGCGGTCCTTCGGGAAAA
1 TTCTACGCGGTCATTCGGGAAAA
* * *
786447 TTCTACGTGGTCATTCGGGATAT
1 TTCTACGCGGTCATTCGGGAAAA
786470 TTCTACGC
1 TTCTACGC
786478 AGTTCATCGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (23 bp):
TTCTACGCGGTCATTCGGGAAAA
Found at i:786544 original size:24 final size:24
Alignment explanation
Indices: 786514--786569 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
786504 CCTTCAGGAC
*
786514 ATTTCTATATGGAACTTCAGTGCA
1 ATTTCTATACGGAACTTCAGTGCA
** * *
786538 ATTTCTACGCGGCACTTCGGTGCA
1 ATTTCTATACGGAACTTCAGTGCA
786562 ATTTCTAT
1 ATTTCTAT
786570 GAGCTGTGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (24 bp):
ATTTCTATACGGAACTTCAGTGCA
Found at i:786924 original size:6 final size:6
Alignment explanation
Indices: 786674--786922 Score: 421
Period size: 6 Copynumber: 41.8 Consensus size: 6
786664 ATGAATAGTG
* * * *
786674 AATGAT AATGAT AATGAT AATGAT AATGAC AATGAC AATGAC AATGAC
1 AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC
786722 AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC
1 AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC
786770 AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC
1 AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC
786818 AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC
1 AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC
* *
786866 AATGAC AATGAC AATGAC AA--AT AATGAT AATGAC AATGAC AATGAC
1 AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC
*
786912 AATGAT AATGA
1 AATGAC AATGA
786923 TAGTGATAAT
Statistics
Matches: 237, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
4 3 0.01
6 234 0.99
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
AATGAC
Found at i:791486 original size:16 final size:16
Alignment explanation
Indices: 791465--791502 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
791455 AATATATGAA
791465 ATGTGAA-AAATGATAT
1 ATGTGAATAAATG-TAT
*
791481 ATGTGAATAAATGTCT
1 ATGTGAATAAATGTAT
791497 ATGTGA
1 ATGTGA
791503 TAAGCTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (16 bp):
ATGTGAATAAATGTAT
Found at i:791625 original size:23 final size:23
Alignment explanation
Indices: 791599--791700 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 23
791589 GGTTCTACAC
*
791599 GGTCCTTTGGGATAATTCTACGT
1 GGTCCTTCGGGATAATTCTACGT
* * *
791622 GGTCCTTCGGGACATTTCTACGC
1 GGTCCTTCGGGATAATTCTACGT
** * *
791645 GGTTATTCGGGATAATACTATGT
1 GGTCCTTCGGGATAATTCTACGT
* * * *
791668 GGTCCTTCAGGACATTTCTATGT
1 GGTCCTTCGGGATAATTCTACGT
*
791691 GGTACTTCGG
1 GGTCCTTCGG
791701 TGCAATTTCT
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (23 bp):
GGTCCTTCGGGATAATTCTACGT
Found at i:791851 original size:6 final size:6
Alignment explanation
Indices: 791840--791919 Score: 97
Period size: 6 Copynumber: 13.2 Consensus size: 6
791830 ATGAATAATG
** * *
791840 AATGAT AATGAT GTTGAG AATAGAT AATGAT AATGAT AATGAT GATGAT
1 AATGAT AATGAT AATGAT AAT-GAT AATGAT AATGAT AATGAT AATGAT
* *
791889 AATGAT AGTGAT AATGAT GATGAT AATGAT A
1 AATGAT AATGAT AATGAT AATGAT AATGAT A
791920 TCTATATATA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
6 56 0.92
7 5 0.08
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.33
Consensus pattern (6 bp):
AATGAT
Found at i:791894 original size:24 final size:24
Alignment explanation
Indices: 791840--791919 Score: 108
Period size: 24 Copynumber: 3.3 Consensus size: 24
791830 ATGAATAATG
**
791840 AATGATAATGATGTTGA-GAATAGAT
1 AATGATAATGATAATGATG-AT-GAT
791865 AATGATAATGATAATGATGATGAT
1 AATGATAATGATAATGATGATGAT
*
791889 AATGATAGTGATAATGATGATGAT
1 AATGATAATGATAATGATGATGAT
791913 AATGATA
1 AATGATA
791920 TCTATATATA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
24 33 0.65
25 17 0.33
26 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.33
Consensus pattern (24 bp):
AATGATAATGATAATGATGATGAT
Found at i:796371 original size:45 final size:46
Alignment explanation
Indices: 796290--796391 Score: 127
Period size: 45 Copynumber: 2.2 Consensus size: 46
796280 TTATGTGACC
* * * *
796290 ATAATCTATGTGTTATTTGATCTATGTGATTATATG-ACAATATGAT
1 ATAAGCTATGTATTATTTGACCTAAGTGATTATATGAAC-ATATGAT
* *
796336 ATAAGCTATGTATTA-TTGACCTAAGTGATTATATGAACATGTGCT
1 ATAAGCTATGTATTATTTGACCTAAGTGATTATATGAACATATGAT
796381 ATAAGCTATGT
1 ATAAGCTATGT
796392 GATAAGGATC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
45 34 0.69
46 15 0.31
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (46 bp):
ATAAGCTATGTATTATTTGACCTAAGTGATTATATGAACATATGAT
Found at i:796423 original size:45 final size:44
Alignment explanation
Indices: 796308--796427 Score: 125
Period size: 45 Copynumber: 2.7 Consensus size: 44
796298 TGTGTTATTT
* **
796308 GATCTATGTGATTATATGACAATATGATATAAGCTATGTATTATT
1 GATCTATGTGATTATATGAC-ATGTGATATAAGCTATGTATTAAG
* * *
796353 GACCTAAGTGATTATATGAACATGTGCTATAAGCTATGTGA-TAAG
1 GATCTATGTGATTATATG-ACATGTGATATAAGCTATGT-ATTAAG
* *
796398 GATCTATGTGCTTATATGTCTATGTGATAT
1 GATCTATGTGATTATATGAC-ATGTGATAT
796428 TGAACTCGTG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
44 1 0.02
45 57 0.93
46 3 0.05
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (44 bp):
GATCTATGTGATTATATGACATGTGATATAAGCTATGTATTAAG
Found at i:796617 original size:23 final size:23
Alignment explanation
Indices: 796590--796727 Score: 163
Period size: 23 Copynumber: 6.1 Consensus size: 23
796580 GGTTCTACGC
796590 GGTCCTTCGGGACAATTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
* * * *
796613 AGTCCTTCGGGACATTTCTACGC
1 GGTCCTTCGGGACAATTCTATGT
*
796636 GGTCCTTC-GGACAATACTATGT
1 GGTCCTTCGGGACAATTCTATGT
* *
796658 GGTCCTTCGGGACATTTCTATGC
1 GGTCCTTCGGGACAATTCTATGT
* *
796681 GGTCTTTCGGGACAATACTATGT
1 GGTCCTTCGGGACAATTCTATGT
* *
796704 GGT-CTTTGGGACATTTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
796726 GG
1 GG
796728 CACTTCAGTG
Statistics
Matches: 94, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
22 35 0.37
23 59 0.63
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (23 bp):
GGTCCTTCGGGACAATTCTATGT
Found at i:796716 original size:68 final size:68
Alignment explanation
Indices: 796590--796727 Score: 168
Period size: 68 Copynumber: 2.0 Consensus size: 68
796580 GGTTCTACGC
* * *
796590 GGTCCTTCGGGACAATTCTATGTAGTCCTTCGGGACATTTCTACGCGGTCCTTCGGACAATACTA
1 GGTCCTTCGGGACAATTCTATGCAGTCCTTCGGGACAATACTACGCGGTCCTTCGGACAATACTA
796655 TGT
66 TGT
* * * * * * * * *
796658 GGTCCTTCGGGACATTTCTATGCGGTCTTTCGGGACAATACTATGTGGTCTTTGGGACATTTCTA
1 GGTCCTTCGGGACAATTCTATGCAGTCCTTCGGGACAATACTACGCGGTCCTTCGGACAATACTA
796723 TGT
66 TGT
796726 GG
1 GG
796728 CACTTCAGTG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (68 bp):
GGTCCTTCGGGACAATTCTATGCAGTCCTTCGGGACAATACTACGCGGTCCTTCGGACAATACTA
TGT
Found at i:796724 original size:45 final size:46
Alignment explanation
Indices: 796582--796722 Score: 223
Period size: 45 Copynumber: 3.1 Consensus size: 46
796572 GTGTCGAGGG
* *
796582 TTCTACGCGGTCCTTCGGGACAATTCTATGTAGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAATACTATGTGGTCCTTCGGGACAT
796628 TTCTACGCGGTCCTTC-GGACAATACTATGTGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAATACTATGTGGTCCTTCGGGACAT
* * *
796673 TTCTATGCGGTCTTTCGGGACAATACTATGTGGT-CTTTGGGACAT
1 TTCTACGCGGTCCTTCGGGACAATACTATGTGGTCCTTCGGGACAT
796718 TTCTA
1 TTCTA
796723 TGTGGCACTT
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
45 56 0.63
46 33 0.37
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (46 bp):
TTCTACGCGGTCCTTCGGGACAATACTATGTGGTCCTTCGGGACAT
Found at i:801059 original size:26 final size:26
Alignment explanation
Indices: 801029--801078 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
801019 ACTTAACAAA
801029 ATTAATACT-AGGACTAAATAAAAAAT
1 ATTAAT-CTAAGGACTAAATAAAAAAT
*
801055 ATTAATCTAAGGACTAAATTAAAA
1 ATTAATCTAAGGACTAAATAAAAA
801079 TGTATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (26 bp):
ATTAATCTAAGGACTAAATAAAAAAT
Found at i:804504 original size:17 final size:17
Alignment explanation
Indices: 804482--804514 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
804472 TTAAGAACCA
804482 TAATATATTATTATAAT
1 TAATATATTATTATAAT
*
804499 TAATATTTTATTATAA
1 TAATATATTATTATAA
804515 CATTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATATATTATTATAAT
Found at i:804578 original size:27 final size:28
Alignment explanation
Indices: 804546--804600 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
804536 ATTAGTATGA
804546 TTTATTATAAA-CTTAAAATCTCA-CAAT
1 TTTATTA-AAATCTTAAAATCTCATCAAT
*
804573 TTTATTAAAATCTTAAAATTTCATCAAT
1 TTTATTAAAATCTTAAAATCTCATCAAT
804601 GGTAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 3 0.12
27 18 0.72
28 4 0.16
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (28 bp):
TTTATTAAAATCTTAAAATCTCATCAAT
Found at i:805096 original size:15 final size:15
Alignment explanation
Indices: 805076--805114 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
805066 TCTAAAAAAG
* *
805076 TAAAAAAATGTTAGA
1 TAAAAAAATATTAAA
805091 TAAAAAAATATTAAA
1 TAAAAAAATATTAAA
805106 TAAATAAAA
1 TAAA-AAAA
805115 AAACATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (15 bp):
TAAAAAAATATTAAA
Found at i:805161 original size:30 final size:28
Alignment explanation
Indices: 805121--805182 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
805111 AAAAAAACAT
* *
805121 AAAAATAATAATAACAAATCAAAAGAAAAA
1 AAAAAAAATAA-AAAAAATC-AAAGAAAAA
*
805151 AAAAAAAATAAAAAAAATCAAAGATAAA
1 AAAAAAAATAAAAAAAATCAAAGAAAAA
805179 AAAA
1 AAAA
805183 TATAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.41
29 7 0.24
30 10 0.34
ACGTcount: A:0.81, C:0.05, G:0.03, T:0.11
Consensus pattern (28 bp):
AAAAAAAATAAAAAAAATCAAAGAAAAA
Found at i:805216 original size:17 final size:16
Alignment explanation
Indices: 805090--805209 Score: 84
Period size: 19 Copynumber: 7.1 Consensus size: 16
805080 AAAATGTTAG
805090 ATAAAAAAATATTAAATAA
1 ATAAAAAAA-A-TAAA-AA
805109 ATAAAAAAACATAAAAATA
1 ATAAAAAAA-AT-AAAA-A
* *
805128 ATAATAACAAAT-CAAA
1 ATAA-AAAAAATAAAAA
*
805144 A-GAAAAAAA-AAAAA
1 ATAAAAAAAATAAAAA
* *
805158 ATAAAAAAAATCAAAG
1 ATAAAAAAAATAAAAA
805174 ATAAAAAAATATAAAAA
1 ATAAAAAAA-ATAAAAA
*
805191 ATAGATAAAAATAAAAA
1 ATA-AAAAAAATAAAAA
805208 AT
1 AT
805210 GAATAAATAA
Statistics
Matches: 81, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
14 9 0.11
15 8 0.10
16 14 0.17
17 19 0.23
18 7 0.09
19 20 0.25
20 4 0.05
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (16 bp):
ATAAAAAAAATAAAAA
Found at i:805218 original size:34 final size:33
Alignment explanation
Indices: 805146--805218 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
805136 AAATCAAAAG
* *
805146 AAAAAA-A-AAAAAATAAAAAAAATCAAAGATA
1 AAAAAATATAAAAAATAAAAAAAATAAAAAATA
* *
805177 AAAAAATATAAAAAATAGATAAAAATAAAAAATG
1 AAAAAATATAAAAAATA-AAAAAAATAAAAAATA
*
805211 AATAAATA
1 AAAAAATA
805219 AATCAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.18
32 1 0.03
33 8 0.24
34 19 0.56
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (33 bp):
AAAAAATATAAAAAATAAAAAAAATAAAAAATA
Found at i:807847 original size:86 final size:85
Alignment explanation
Indices: 807450--808191 Score: 820
Period size: 86 Copynumber: 8.7 Consensus size: 85
807440 TGTGTCATCA
* * * * * * * * *
807450 AGCTAAATGGAATCCAACTCGAAGGTATTTGTTGACATATAGCCCTTCTTGCCTTGAGCTAAGCT
1 AGCTGAATGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
* * *
807515 GTAAATTTGACATGCCCTTG
66 ATAAATTTGATATGCCTTTG
* * * * *
807535 AGCTGAATGGAATCGAACTTGAAGGTATTTGTTGACAAATAACCCTTCTTGCCTTGACCTATGCT
1 AGCTGAATGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
807600 ATAAATTTGATATGCCTTTG
66 ATAAATTTGATATGCCTTTG
* * * * *
807620 AGCTGAATGTAATCGAACTCGAAAGTCTTTATTGACAGATAATCCTTCTCGCCTTGAGTTATGCT
1 AGCTGAATGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
*
807685 GTAAATTTGATATGCCTTTG
66 ATAAATTTGATATGCCTTTG
* * * * * * *
807705 AGCTAAATATAATCAAACTTGAAGGTCTTGGTTAACAGATAGCCCTTCTCGCCTTGAGCTATGTT
1 AGCTGAATGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
* *
807770 ATAAATTCGATATGCATTTG
66 ATAAATTTGATATGCCTTTG
* * * * * **
807790 AGTTGAATGTAATCGAACTTCAAAGGTCTTTATTGACAGATAACCCTTCTGGCCTTGAGTTATTA
1 AGCTGAATGTAATCGAACTT-GAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
807855 TATAAATTTGATATGCATTTG
65 TATAAATTTGATATGCCTTTG
* * * *
807876 AGCTGAATGTAATCAAACTTGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTTGAGTTATGT
1 AGCTGAATGTAATCGAACTTGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
** * *
807941 TGCAAATTTGATCTGCTTTTG
65 TATAAATTTGATATGCCTTTG
* * ** * *
807962 AGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGATAGATAGTCATTCTCACCTTGAGCTATGC
1 AGCTGAATGTAATCGAACTTGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
808027 TATAAATTTGATGTGCCTTTG
65 TATAAATTTGATATGCCTTTG
* * * ** * * * *
808048 AGCTAAATGTAATCGAACTCGAAGGACTTTTGTAAACAGATAACCTTTCTCACCTTGAGTTAGGC
1 AGCTGAATGTAATCGAACTTGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
**
808113 TACGAATTTGATATGCCTTTG
65 TATAAATTTGATATGCCTTTG
* *
808134 AGCTGAATGTAATCAAACTTGAAGGTCTTTTGTTGGCAGATAA-CCTTCTCGCCTTGAG
1 AGCTGAATGTAATCGAACTTGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAG
808192 TTATACTGCA
Statistics
Matches: 559, Mismatches: 96, Indels: 4
0.85 0.15 0.01
Matches are distributed among these distances:
85 254 0.45
86 305 0.55
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (85 bp):
AGCTGAATGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
ATAAATTTGATATGCCTTTG
Found at i:809235 original size:95 final size:95
Alignment explanation
Indices: 809102--809302 Score: 294
Period size: 95 Copynumber: 2.1 Consensus size: 95
809092 CATTATATAG
* * *
809102 ATATTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAAGCTGAGGCTTTTAACTAATT
1 ATATTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAAGCTGAAGCGTTTAACCAATT
*
809167 GCTCTAGAGGGACAACTCAAGCTTTATTGT
66 ACTCTAGAGGGACAACTCAAGCTTTATTGT
** * * *
809197 ATATTATAATCATTTTTATCATGCTAGCTGAATCTTATCCATAAAGCTGAAGCGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAAGCTGAAGCGTTTAACCAATT
* *
809262 ACTTTAGAGGGACAGCTCAAGCTTTATTGT
66 ACTCTAGAGGGACAACTCAAGCTTTATTGT
809292 ATATATATAAT
1 ATAT-TATAAT
809303 ATTATGATAT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 88 0.94
96 6 0.06
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (95 bp):
ATATTATAATCACCTTTATCAGGATAGCTGAATATTATCCATAAAGCTGAAGCGTTTAACCAATT
ACTCTAGAGGGACAACTCAAGCTTTATTGT
Found at i:812882 original size:25 final size:24
Alignment explanation
Indices: 812845--812897 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
812835 GGAATTATTC
* * *
812845 TAAAAAAAGTAAAAAAATGTTAGA
1 TAAAAAAAATAAAAAAATATTAAA
*
812869 TAAAAAACAATAAAGAAATATTAAA
1 TAAAAAA-AATAAAAAAATATTAAA
812894 TAAA
1 TAAA
812898 TCAAAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.21
Consensus pattern (24 bp):
TAAAAAAAATAAAAAAATATTAAA
Found at i:812928 original size:30 final size:31
Alignment explanation
Indices: 812871--812953 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 31
812861 ATGTTAGATA
*
812871 AAAAACAATAAAGAAATATTAAATAAATC-AAAG
1 AAAAAC-ATAAAAAAATA-T-AATAAATCAAAAG
812904 AAAAACATAAAAAAATATAATAAATCAAAAG
1 AAAAACATAAAAAAATATAATAAATCAAAAG
812935 AAAAA-AT--AAAAATATAATA
1 AAAAACATAAAAAAATATAATA
812954 TAATATAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
28 12 0.25
30 10 0.21
31 10 0.21
32 10 0.21
33 6 0.12
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (31 bp):
AAAAACATAAAAAAATATAATAAATCAAAAG
Found at i:812972 original size:44 final size:43
Alignment explanation
Indices: 812910--813016 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
812900 AAAGAAAAAC
812910 ATAAAAA-AATAT-AATAAATCAAA-AGAAAAAATAAAAATATA-
1 ATAAAAATAATATAAATAAATCAAATA-AAAAAATAAAAA-ATAG
* *
812951 ATATAATATAATATAAATAAATCAAATAAAAAGATAAAAAATAG
1 ATA-AAAATAATATAAATAAATCAAATAAAAAAATAAAAAATAG
812995 ATAAAAATAA-A-AAATAAATCAA
1 ATAAAAATAATATAAATAAATCAA
813017 TCAATTAAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
41 14 0.24
42 4 0.07
43 14 0.24
44 25 0.43
45 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (43 bp):
ATAAAAATAATATAAATAAATCAAATAAAAAAATAAAAAATAG
Found at i:813136 original size:18 final size:17
Alignment explanation
Indices: 813109--813148 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
813099 GTAATAAAAT
*
813109 AAAATAAAAACAATATGAA
1 AAAAGAAAAA-AATAT-AA
813128 AAAAGAAAAAAATATAA
1 AAAAGAAAAAAATATAA
813145 AAAA
1 AAAA
813149 TATAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAGAAAAAAATATAA
Found at i:813138 original size:9 final size:9
Alignment explanation
Indices: 813101--813165 Score: 58
Period size: 10 Copynumber: 6.8 Consensus size: 9
813091 TTATAAAAGT
813101 AATAAAATAA
1 AATAAAA-AA
*
813111 AATAAAAAC
1 AATAAAAAA
*
813120 AATATGAAAA
1 AATA-AAAAA
*
813130 AAGAAAAAA
1 AATAAAAAA
813139 ATATAAAAAA
1 A-ATAAAAAA
*
813149 TATAAAAAAA
1 AAT-AAAAAA
813159 AATAAAA
1 AATAAAA
813166 GCTTAGAGGA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
9 16 0.36
10 28 0.64
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (9 bp):
AATAAAAAA
Found at i:813150 original size:27 final size:26
Alignment explanation
Indices: 813104--813165 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 26
813094 TAAAAGTAAT
813104 AAAATAAAATAAAAACAATATGAAAAA
1 AAAATAAAATAAAAACAATAT-AAAAA
813131 AGAAA-AAAATATAAAA-AATATAAAAA
1 A-AAATAAAATA-AAAACAATATAAAAA
813157 AAAATAAAA
1 AAAATAAAA
813166 GCTTAGAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
25 3 0.09
26 10 0.31
27 12 0.38
28 7 0.22
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.15
Consensus pattern (26 bp):
AAAATAAAATAAAAACAATATAAAAA
Found at i:813155 original size:18 final size:18
Alignment explanation
Indices: 813109--813157 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
813099 GTAATAAAAT
813109 AAAATAAAAACAATATGAA
1 AAAATAAAAA-AATATGAA
*
813128 AAAAGAAAAAAATAT-AA
1 AAAATAAAAAAATATGAA
813145 AAAATATAAAAAA
1 AAAATA-AAAAAA
813158 AAATAAAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 11 0.41
19 9 0.33
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (18 bp):
AAAATAAAAAAATATGAA
Found at i:821394 original size:22 final size:22
Alignment explanation
Indices: 821369--821423 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
821359 TAATTAATCC
*
821369 TTTATTATT-ATTTAATTTAAAT
1 TTTATTATTAATATAA-TTAAAT
*
821391 TTTAATATTAATATAATTAAAT
1 TTTATTATTAATATAATTAAAT
* *
821413 TATATTTTTAA
1 TTTATTATTAA
821424 ATTAAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTATTAATATAATTAAAT
Found at i:821419 original size:27 final size:25
Alignment explanation
Indices: 821390--821441 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 25
821380 TTAATTTAAA
821390 TTTTAATATTAATATAATTAAATTATAT
1 TTTTAA-ATTAA-A-AATTAAATTATAT
821418 TTTTAAATTAAAAATTATAATTAT
1 TTTTAAATTAAAAATTA-AATTAT
821442 TTCAGGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.22
26 7 0.30
27 5 0.22
28 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTTAAATTAAAAATTAAATTATAT
Found at i:821784 original size:49 final size:49
Alignment explanation
Indices: 821729--821830 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
821719 GGTTAATTCT
* *
821729 TCATATATAAAGAATGACTTCAAATTGCCTAAACCGTCGTGTTCTGTCA
1 TCATATATAAAGAATGACTTCAAATTGCCTAAACCATCGTGTTCTGCCA
821778 TCATATATAAAGAATGACTTCAAATTGCCTAAACCATCGTGTTCTGCCA
1 TCATATATAAAGAATGACTTCAAATTGCCTAAACCATCGTGTTCTGCCA
821827 TCAT
1 TCAT
821831 TGGTGGTGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (49 bp):
TCATATATAAAGAATGACTTCAAATTGCCTAAACCATCGTGTTCTGCCA
Found at i:823135 original size:21 final size:19
Alignment explanation
Indices: 823111--823158 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
823101 AACAAAAACC
823111 CAATTAAACTAAATTAAAAGG
1 CAATTAAA-TAAATT-AAAGG
*
823132 CAATTTATATAAATTAAAGG
1 CAA-TTAAATAAATTAAAGG
823152 CAATTAA
1 CAATTAA
823159 TAGACACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 8 0.33
21 9 0.38
22 4 0.17
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.29
Consensus pattern (19 bp):
CAATTAAATAAATTAAAGG
Found at i:824537 original size:10 final size:10
Alignment explanation
Indices: 824522--824546 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
824512 GGATCACCCC
824522 TTTTTTCTTT
1 TTTTTTCTTT
824532 TTTTTTCTTT
1 TTTTTTCTTT
824542 TTTTT
1 TTTTT
824547 ATTTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:825547 original size:118 final size:117
Alignment explanation
Indices: 825424--825695 Score: 427
Period size: 118 Copynumber: 2.3 Consensus size: 117
825414 TGGAAACGAT
* * *
825424 CTAAGGTTGAACAATTTCTTCTTATTATGAACTTCTTATCCCTCATCGGATGAGTTCTTCTCATT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATCCCTCATCGGATAAGTTCTTCTCATT
* * * *
825489 ATGAACTCTCCCATTGGAAATGTTGATCCACCTTCTTCTATGATGGAATTGAG
66 ATGAAATCTCCCATTGGAAATGTTGATCAACCTCCTTCTATGATGG-ATCGAG
* *
825542 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATAAGTTCTTCTTATT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATCCCTCATCGGATAAGTTCTTCTCATT
* * *
825607 ATGAAATCTCTCATTGGAAATGTTGATCAACCTCCTTTTGTGATGGATCGAG
66 ATGAAATCTCCCATTGGAAATGTTGATCAACCTCCTTCTATGATGGATCGAG
825659 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
825696 CATTGGAAAT
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
117 42 0.30
118 100 0.70
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (117 bp):
CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATCCCTCATCGGATAAGTTCTTCTCATT
ATGAAATCTCCCATTGGAAATGTTGATCAACCTCCTTCTATGATGGATCGAG
Found at i:825675 original size:78 final size:78
Alignment explanation
Indices: 825593--825774 Score: 258
Period size: 78 Copynumber: 2.3 Consensus size: 78
825583 CTCATCGGAT
* **
825593 AAGTTCTTCTTATTATGAAA-TCTCTCATTGGAAATGTTGATCAACCTCCTTTTGTGATGGATCG
1 AAGTTCTTCTCATTATGAAATTCT-TCATTGGAAATGTTGATCAACCTCCTTTTGTGATAAATCG
* *
825657 AGCTAAGGTTGAAC
65 ACCAAAGGTTGAAC
* * * *
825671 AAGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCCACCTCTTTTTGTGATAAATTGA
1 AAGTTCTTCTCATTATGAAATTCTTCATTGGAAATGTTGATCAACCTCCTTTTGTGATAAATCGA
825736 CCAAAGGTTGAAC
66 CCAAAGGTTGAAC
*
825749 AAGTTCTTCTCATTATGAACTTCTTC
1 AAGTTCTTCTCATTATGAAATTCTTC
825775 TCCCTTATCG
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 91 0.97
79 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (78 bp):
AAGTTCTTCTCATTATGAAATTCTTCATTGGAAATGTTGATCAACCTCCTTTTGTGATAAATCGA
CCAAAGGTTGAAC
Found at i:825793 original size:117 final size:116
Alignment explanation
Indices: 825672--826062 Score: 498
Period size: 117 Copynumber: 3.3 Consensus size: 116
825662 AGGTTGAACA
* * * *
825672 AGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCCACCTCTTTTTGTGATAAATTGAC
1 AGTTCTTCTCATTATGAAC-TCTCCATTGGAAATGTTGATCCACCTCATTCTGTGATAAATCGAC
825737 CAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
65 CAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
* * * * * * *
825789 AGTTCTTCTTATTATGAACTCTCTACTAGAAATGTTGATTCACTTCATTCTGTGATAGAATCGAA
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCACCTCATTCTGTGATA-AATCGAC
* * * *
825854 CAAAGTGATGAATAAGTTCTTCTCATTATGAACCTCTTCTCCCTCATCGGATG
65 CAAAG-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
* * * * *
825907 AGTTATTCTCATTATGAACTCTCCAATGGAAAAGTTGATCCACCTCCTTCTGTGATGGAATCGAA
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCACCTCATTCTGTGAT-AAATCG-A
* * *
825972 CC-AAGGTTGAACAAGTTATTCTCATTATGAATTTATTCT-CCTTCATCGGATG
64 CCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTT-ATCGGATG
*
826024 AGTTCTTCTCATTATAAACTCTCCATTGGAAATGTTGAT
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGAT
826063 TAGTTAATCA
Statistics
Matches: 232, Mismatches: 37, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
116 33 0.14
117 99 0.43
118 98 0.42
119 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (116 bp):
AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCACCTCATTCTGTGATAAATCGACC
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
Found at i:825892 original size:118 final size:117
Alignment explanation
Indices: 825672--826062 Score: 516
Period size: 118 Copynumber: 3.3 Consensus size: 117
825662 AGGTTGAACA
* * * *
825672 AGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCCACCTCTTTTTGTGATA-AATTGA
1 AGTTCTTCTCATTATGAAC-TCTCCATTGGAAATGTTGATCCACCTCATTCTGTGATAGAATCGA
*
825736 CCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
65 ACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
* * * * * *
825789 AGTTCTTCTTATTATGAACTCTCTACTAGAAATGTTGATTCACTTCATTCTGTGATAGAATCGAA
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCACCTCATTCTGTGATAGAATCGAA
* * * *
825854 CAAAGTGATGAATAAGTTCTTCTCATTATGAACCTCTTCTCCCTCATCGGATG
66 CAAAG-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
* * * * *
825907 AGTTATTCTCATTATGAACTCTCCAATGGAAAAGTTGATCCACCTCCTTCTGTGATGGAATCGAA
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCACCTCATTCTGTGATAGAATCGAA
* * * *
825972 CCAAGGTTGAACAAGTTATTCTCATTATGAATTTATTCT-CCTTCATCGGATG
66 CAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTT-ATCGGATG
*
826024 AGTTCTTCTCATTATAAACTCTCCATTGGAAATGTTGAT
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGAT
826063 TAGTTAATCA
Statistics
Matches: 234, Mismatches: 37, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
116 33 0.14
117 99 0.42
118 102 0.44
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (117 bp):
AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCACCTCATTCTGTGATAGAATCGAA
CAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATG
Found at i:825996 original size:313 final size:313
Alignment explanation
Indices: 825426--826002 Score: 854
Period size: 313 Copynumber: 1.8 Consensus size: 313
825416 GAAACGATCT
* *
825426 AAGGTTGAACAATTTCTTCTTATTATGAACTTCTTATCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATCCCTCATCGGATGAGTTCTTCTCATTAT
* * * * * * *
825491 GAACTCTCCCATTGGAAATGTTGATCCACCTTCTTCTATGATGGAATTGAGCTAAGGTTGAACAA
66 GAACTCTCCCACTAGAAATGTTGATCCACCTTCTTCTATGATAGAATCGAACAAAGGATGAACAA
* * * *
825556 GTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATAAGTTCTTCTTATTATGAAATCTCTCAT
131 GTTCTTCTCATTATGAACCTCTTCTCCCTCATCGGATAAGTTATTCTCATTATGAAATCTCTCAA
* * * * *
825621 TGGAAATGTTGATCAACCTCCTTTTGTGATGGATCGAGCTAAGGTTGAACAAGTTCTTCTCATTA
196 TGGAAAAGTTGATCAACCTCCTTCTGTGATGGATCGAACCAAGGTTGAACAAGTTATTCTCATTA
825686 TGAACTTCTTCATTGGAAATGTTGATCCACCTCTTTTTGTGATAAATTGACCA
261 TGAACTTCTTCATTGGAAATGTTGATCCACCTCTTTTTGTGATAAATTGACCA
* * *
825739 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATCCCTCATCGGATGAGTTCTTCTCATTAT
* * * *
825804 GAACTCT-CTACTAGAAATGTTGATTCA-CTTCATTCTGTGATAGAATCGAACAAAGTGATGAAT
66 GAACTCTCCCACTAGAAATGTTGATCCACCTTC-TTCTATGATAGAATCGAACAAAG-GATGAAC
* *
825867 AAGTTCTTCTCATTATGAACCTCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTC-C
129 AAGTTCTTCTCATTATGAACCTCTTCTCCCTCATCGGATAAGTTATTCTCATTATGAAATCTCTC
*
825931 AATGGAAAAGTTGATCCACCTCCTTCTGTGATGGAATCGAACCAAGGTTGAACAAGTTATTCTCA
194 AATGGAAAAGTTGATCAACCTCCTTCTGTGATGG-ATCGAACCAAGGTTGAACAAGTTATTCTCA
825996 TTATGAA
258 TTATGAA
826003 TTTATTCTCC
Statistics
Matches: 233, Mismatches: 28, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
311 4 0.02
312 65 0.28
313 164 0.70
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (313 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATCCCTCATCGGATGAGTTCTTCTCATTAT
GAACTCTCCCACTAGAAATGTTGATCCACCTTCTTCTATGATAGAATCGAACAAAGGATGAACAA
GTTCTTCTCATTATGAACCTCTTCTCCCTCATCGGATAAGTTATTCTCATTATGAAATCTCTCAA
TGGAAAAGTTGATCAACCTCCTTCTGTGATGGATCGAACCAAGGTTGAACAAGTTATTCTCATTA
TGAACTTCTTCATTGGAAATGTTGATCCACCTCTTTTTGTGATAAATTGACCA
Found at i:827554 original size:137 final size:138
Alignment explanation
Indices: 827293--827610 Score: 401
Period size: 137 Copynumber: 2.3 Consensus size: 138
827283 TGGATCAAAG
* *
827293 TGGAGGCTCTAATATTAA-CTTAAATTAATTTTAATCAA-TATTGCAATTCGAATAATTAAAGTG
1 TGGAGGCTCTAATATTAATCCT-AATTAATTTTAATCAATTATTG-AATTCGAATAATCAAAGTG
*
827356 GAACCTCCAACAAAAGCGAGGACAAAATTAAGAATTCTCCTAATTTAAGAATTAAATGTGAAATT
64 GAACCTCCAACAAAAGCGAGGACAAAATTAAGAATTCTCCTAATTTAAGAATCAAATGTGAAATT
827421 AAGCCTAAGA
129 AAGCCTAAGA
* * * * *
827431 TGGAGTCTCAAATATTAATCCTAATTCATTTTAATCAATTATTG-ATTCGAATAATCAGATTGGA
1 TGGAGGCTCTAATATTAATCCTAATTAATTTTAATCAATTATTGAATTCGAATAATCAAAGTGGA
* * * * * * * *
827495 ACCTCGAGCAAAAGCGATGACTAAATTAAGAATTCTCTTAATTTAGGGA-CGAATGGTGAAATTA
66 ACCTCCAACAAAAGCGAGGACAAAATTAAGAATTCTCCTAATTTAAGAATCAAAT-GTGAAATTA
* * *
827559 GGCGTATGA
130 AGCCTAAGA
*
827568 TGGAGGCTCTAATGTTAATCCTAATTAATTTTAATCAATTATT
1 TGGAGGCTCTAATATTAATCCTAATTAATTTTAATCAATTATT
827611 ACTATAATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
136 3 0.02
137 113 0.73
138 31 0.20
139 7 0.05
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (138 bp):
TGGAGGCTCTAATATTAATCCTAATTAATTTTAATCAATTATTGAATTCGAATAATCAAAGTGGA
ACCTCCAACAAAAGCGAGGACAAAATTAAGAATTCTCCTAATTTAAGAATCAAATGTGAAATTAA
GCCTAAGA
Found at i:830162 original size:21 final size:21
Alignment explanation
Indices: 830138--830179 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
830128 AATATAAATT
830138 GTGTATCGATGCACTGCTACA
1 GTGTATCGATGCACTGCTACA
830159 GTGTATCGATGCACTGCTACA
1 GTGTATCGATGCACTGCTACA
830180 ATACTTTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
GTGTATCGATGCACTGCTACA
Found at i:836255 original size:32 final size:31
Alignment explanation
Indices: 836214--836302 Score: 124
Period size: 32 Copynumber: 2.8 Consensus size: 31
836204 AGAGGTCATA
836214 AAGAACCTAAGTAAACTGTCCATATGTTCCT
1 AAGAACCTAAGTAAACTGTCCATATGTTCCT
*
836245 GAAGAACCTAAGTAAATTGTCCATATGTTCCT
1 -AAGAACCTAAGTAAACTGTCCATATGTTCCT
* * * *
836277 TAGAACATAGGTATACTGTCCATATG
1 AAGAACCTAAGTAAACTGTCCATATG
836303 CCCCGAAAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 21 0.41
32 30 0.59
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (31 bp):
AAGAACCTAAGTAAACTGTCCATATGTTCCT
Done.