Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015263.1 Kokia drynarioides strain JFW-HI SEQ_130308, 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: 1369056
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 871 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:616069 original size:24 final size:24
Alignment explanation
Indices: 616042--616087 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
616032 GATGTTTTCA
616042 TGTTGTTTT-AGTTATTATTTTTGC
1 TGTTGTTTTGA-TTATTATTTTTGC
*
616066 TGTTGTTTTGATTGTTATTTTT
1 TGTTGTTTTGATTATTATTTTT
616088 TTATGCGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.11, C:0.02, G:0.17, T:0.70
Consensus pattern (24 bp):
TGTTGTTTTGATTATTATTTTTGC
Found at i:616233 original size:25 final size:25
Alignment explanation
Indices: 616174--616233 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
616164 TTTTTTTCCT
*
616174 AATTTATTTGTAATTATCTTAATATA
1 AATTTATTT-TAATTATCTTAAAATA
*
616200 AATTT-TTTTAATGTATTTTAAAAT-
1 AATTTATTTTAAT-TATCTTAAAATA
*
616224 TATTTATTTT
1 AATTTATTTT
616234 TTAATGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 8 0.28
25 16 0.55
26 5 0.17
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (25 bp):
AATTTATTTTAATTATCTTAAAATA
Found at i:628087 original size:20 final size:21
Alignment explanation
Indices: 628048--628087 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
628038 AAAACCTTAC
* *
628048 TGTTTTGTTGTTGTTTTTCCA
1 TGTTTTGGTGTTGATTTTCCA
628069 TGTTTTGGTGTT-ATTTTCC
1 TGTTTTGGTGTTGATTTTCC
628088 CACTTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.05, C:0.10, G:0.20, T:0.65
Consensus pattern (21 bp):
TGTTTTGGTGTTGATTTTCCA
Found at i:632688 original size:89 final size:89
Alignment explanation
Indices: 632531--632708 Score: 284
Period size: 89 Copynumber: 2.0 Consensus size: 89
632521 GGATTACAAG
* **
632531 CCCTACGATGGATGAGATTTATGCTTGATTTGCATATTCTCGTCAGTTTAGTGTGAGCAGTATCG
1 CCCTACGATGGATGAGATTTATGCTTGATTTGCATATTCTCGTCAGCTTAGTGTGAGCAACATCG
632596 TTAGGGAACAGTTATATGTACAGA
66 TTAGGGAACAGTTATATGTACAGA
* * * *
632620 CCCTATGATGGTTGAGATTTATGCTTGATTTGCATATTCTTGTCAGCTTAGTGTGAGCAACATTG
1 CCCTACGATGGATGAGATTTATGCTTGATTTGCATATTCTCGTCAGCTTAGTGTGAGCAACATCG
*
632685 TTAGGGGACAGTTATATGTACAGA
66 TTAGGGAACAGTTATATGTACAGA
632709 TATCGTATCG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (89 bp):
CCCTACGATGGATGAGATTTATGCTTGATTTGCATATTCTCGTCAGCTTAGTGTGAGCAACATCG
TTAGGGAACAGTTATATGTACAGA
Found at i:633532 original size:21 final size:21
Alignment explanation
Indices: 633489--633539 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
633479 ATGTCTTATT
*
633489 TCGGTAGAAGTTACACTTATA
1 TCGGTAGAAGTTACACTAATA
*
633510 TCGGTAGAAGTTTCAC-AAGTA
1 TCGGTAGAAGTTACACTAA-TA
633531 TCGGTAGAA
1 TCGGTAGAA
633540 TTCTGCACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (21 bp):
TCGGTAGAAGTTACACTAATA
Found at i:640960 original size:3 final size:3
Alignment explanation
Indices: 640954--640987 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
640944 TGTTATAATC
640954 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
640988 AGTCAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:663783 original size:126 final size:126
Alignment explanation
Indices: 663558--663811 Score: 375
Period size: 126 Copynumber: 2.0 Consensus size: 126
663548 TGAGCTGCAG
* * *
663558 AATAAGCAGCAAGATGTTCAGAATCTTTCACTTGATAGAAAGCTGGGGAAGGACCATTCCCATAG
1 AATAAGCAGCAAGATGTTCAGAATCCTTCACTTGATAGAAAGCTGGGGAAGGACAATTCCCACAG
* * * *
663623 CCCTTCTAATTTGGACGTGCTTGAAGGTGGAAATGATGAA-TCCGTGACAAAATCAGTTAGC
66 CCCTTCTAACTTGGACGTGCTTGAAGGAGGAAATGAT-AAGTCAGTGACAAAACCAGTTAGC
** * *
663684 AATAAGCAGCAAGATGTTCAGGTTCCTTCACTTGATGGAAAGCTGGGGAAGGACAATTTCCACAG
1 AATAAGCAGCAAGATGTTCAGAATCCTTCACTTGATAGAAAGCTGGGGAAGGACAATTCCCACAG
* *
663749 CCCTTCTAACTTGGATGTGGTTGAAGGAGGAAATGATAAGTCAGTGACAAAACCAGTTAGC
66 CCCTTCTAACTTGGACGTGCTTGAAGGAGGAAATGATAAGTCAGTGACAAAACCAGTTAGC
663810 AA
1 AA
663812 GAAGAAGCTT
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 2 0.02
126 112 0.98
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (126 bp):
AATAAGCAGCAAGATGTTCAGAATCCTTCACTTGATAGAAAGCTGGGGAAGGACAATTCCCACAG
CCCTTCTAACTTGGACGTGCTTGAAGGAGGAAATGATAAGTCAGTGACAAAACCAGTTAGC
Found at i:673556 original size:8 final size:7
Alignment explanation
Indices: 673529--673554 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
673519 CAAGTTTAAC
673529 TTTTTAT
1 TTTTTAT
673536 TTTTTAT
1 TTTTTAT
673543 TTTTTAT
1 TTTTTAT
673550 TTTTT
1 TTTTT
673555 TAATAATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:691187 original size:7 final size:7
Alignment explanation
Indices: 691175--691203 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
691165 TTCGAAGTAA
691175 AATTTCG
1 AATTTCG
691182 AATTTCG
1 AATTTCG
691189 AATTTCG
1 AATTTCG
691196 AATTTCG
1 AATTTCG
691203 A
1 A
691204 TCATGATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (7 bp):
AATTTCG
Found at i:691816 original size:29 final size:30
Alignment explanation
Indices: 691760--691816 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
691750 ATTTGAACCG
691760 AAATAAAAGTTTGATGTATATAATTGCACA
1 AAATAAAAGTTTGATGTATATAATTGCACA
691790 AAATCAAAA-TTTG-TGTATCA-AATTGCA
1 AAAT-AAAAGTTTGATGTAT-ATAATTGCA
691817 TATTTGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
29 12 0.48
30 9 0.36
31 4 0.16
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (30 bp):
AAATAAAAGTTTGATGTATATAATTGCACA
Found at i:693873 original size:22 final size:20
Alignment explanation
Indices: 693832--693875 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
693822 AGGTTCGTCC
*
693832 ATATTATTTTTAATATTTAT
1 ATATTATTTTTAATAGTTAT
693852 ATATATATTTTTATATAGTTAT
1 ATAT-TATTTTTA-ATAGTTAT
693874 AT
1 AT
693876 TAACATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 8 0.38
22 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATATTATTTTTAATAGTTAT
Found at i:699176 original size:2 final size:2
Alignment explanation
Indices: 699165--699206 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
699155 TATAAGTTTA
*
699165 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
699205 AT
1 AT
699207 TTAAAACTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:705867 original size:53 final size:53
Alignment explanation
Indices: 705809--705914 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
705799 GATGAAAAGG
705809 CATAAACAACCTTATGAGTATATACTTTTTTGTTATAAAATAAAGAGACAGAA
1 CATAAACAACCTTATGAGTATATACTTTTTTGTTATAAAATAAAGAGACAGAA
705862 CATAAACAACCTTATGAGTATATACTTTTTTGTTATAAAATAAAGAGACAGAA
1 CATAAACAACCTTATGAGTATATACTTTTTTGTTATAAAATAAAGAGACAGAA
705915 AGTAAATAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (53 bp):
CATAAACAACCTTATGAGTATATACTTTTTTGTTATAAAATAAAGAGACAGAA
Found at i:712532 original size:29 final size:30
Alignment explanation
Indices: 712475--712536 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
712465 ATCTTAAAAT
*
712475 TATACATGAATTTTAATTTAATGTGCAATTA
1 TATACATGAATTTTAATTTAA-GTACAATTA
*
712506 TATACATGAATTTTAATTTGA-TACAATTA
1 TATACATGAATTTTAATTTAAGTACAATTA
712535 TA
1 TA
712537 CACGTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.31
31 20 0.69
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (30 bp):
TATACATGAATTTTAATTTAAGTACAATTA
Found at i:712544 original size:29 final size:29
Alignment explanation
Indices: 712472--712544 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
712462 TAAATCTTAA
*
712472 AATTATACA-TGAATTTTAATTTAATGTGC
1 AATTATACACTGAATTTTAATTTAA-GTAC
* *
712501 AATTATATACATGAATTTTAATTTGA-TAC
1 AATTATACAC-TGAATTTTAATTTAAGTAC
712530 AATTATACACGTGAA
1 AATTATACAC-TGAA
712545 ACTTTAGTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 23 0.62
31 14 0.38
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (29 bp):
AATTATACACTGAATTTTAATTTAAGTAC
Found at i:712803 original size:31 final size:29
Alignment explanation
Indices: 712727--712803 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
712717 AGAATTTGAT
* *
712727 AAAATCAAAATTTCATGTATAAAATTATAC
1 AAAACCAAAA-TTCATGTATAAAATTACAC
* *
712757 AAAATCAAAATTCATGTATACAATTACAC
1 AAAACCAAAATTCATGTATAAAATTACAC
*
712786 ATTAAACCATAATTCATG
1 A--AAACCAAAATTCATG
712804 CATAGTTTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 18 0.44
30 10 0.24
31 13 0.32
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (29 bp):
AAAACCAAAATTCATGTATAAAATTACAC
Found at i:720040 original size:25 final size:25
Alignment explanation
Indices: 720012--720059 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
720002 GTGAGACCAC
720012 ATCTATCTTGCATCAAGTTTCAACA
1 ATCTATCTTGCATCAAGTTTCAACA
720037 ATCTATCTTGCATCAAGTTTCAA
1 ATCTATCTTGCATCAAGTTTCAA
720060 AAATATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (25 bp):
ATCTATCTTGCATCAAGTTTCAACA
Found at i:720169 original size:12 final size:12
Alignment explanation
Indices: 720154--720178 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
720144 TTATTATTTG
720154 ACAAATAAATAA
1 ACAAATAAATAA
720166 ACAAATAAATAA
1 ACAAATAAATAA
720178 A
1 A
720179 AAAACAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
ACAAATAAATAA
Found at i:720177 original size:16 final size:16
Alignment explanation
Indices: 720156--720186 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
720146 ATTATTTGAC
*
720156 AAATAAATAAACAAAT
1 AAATAAAAAAACAAAT
720172 AAATAAAAAAACAAA
1 AAATAAAAAAACAAA
720187 ATACAAACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (16 bp):
AAATAAAAAAACAAAT
Found at i:723400 original size:5 final size:5
Alignment explanation
Indices: 723392--723431 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
723382 TATTTTATTT
723392 ATAAA ATAATA AT-AA ATAAA ATAAA AT-AA A-AAA ATAAA AT
1 ATAAA ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
723432 TGGATTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 9 0.29
5 19 0.61
6 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:723427 original size:13 final size:14
Alignment explanation
Indices: 723392--723431 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
723382 TATTTTATTT
723392 ATAAAATAATAATAA
1 ATAAAATAA-AATAA
723407 ATAAAATAAAATAA
1 ATAAAATAAAATAA
723421 A-AAAATAAAAT
1 ATAAAATAAAAT
723432 TGGATTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 10 0.40
14 6 0.24
15 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAAATAAAATAA
Found at i:723646 original size:35 final size:35
Alignment explanation
Indices: 723601--723687 Score: 122
Period size: 35 Copynumber: 2.4 Consensus size: 35
723591 TTTTAAATTA
* *
723601 TATGTATATATTTATATAGTTTATTCTTTAT-ACATAG
1 TATGTATATA--TATATAGCTTATTATTT-TCACATAG
723638 TATGTATATATATATAGCTTATTATTTTCACATAG
1 TATGTATATATATATAGCTTATTATTTTCACATAG
723673 TATGTATATATATAT
1 TATGTATATATATAT
723688 TTTATTTGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
34 1 0.02
35 36 0.77
37 10 0.21
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (35 bp):
TATGTATATATATATAGCTTATTATTTTCACATAG
Found at i:723711 original size:17 final size:19
Alignment explanation
Indices: 723675--723712 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
723665 TCACATAGTA
*
723675 TGTATATATATATTTTATT
1 TGTATATATATATTTAATT
723694 TGTATAT-TATA-TTAATT
1 TGTATATATATATTTAATT
723711 TG
1 TG
723713 ACTACTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
TGTATATATATATTTAATT
Found at i:728614 original size:20 final size:21
Alignment explanation
Indices: 728577--728616 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
728567 TTAGAGATTG
*
728577 AAATTAAATTATAATTTTAAA
1 AAATTAAATCATAATTTTAAA
728598 AAATTAAATCA-AATTTTAA
1 AAATTAAATCATAATTTTAA
728617 TCATTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTAAATCATAATTTTAAA
Found at i:728880 original size:17 final size:17
Alignment explanation
Indices: 728855--728924 Score: 86
Period size: 17 Copynumber: 4.1 Consensus size: 17
728845 GGTCCAACAG
728855 AATTTAAATTTATTTAA
1 AATTTAAATTTATTTAA
* *
728872 AAATTAAATTTATTTTA
1 AATTTAAATTTATTTAA
* *
728889 AGTTTAAATTTACTTAA
1 AATTTAAATTTATTTAA
*
728906 ATTTTAAATTTATTATAA
1 AATTTAAATTTATT-TAA
728924 A
1 A
728925 TATAAGTGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 40 0.91
18 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (17 bp):
AATTTAAATTTATTTAA
Found at i:729621 original size:19 final size:19
Alignment explanation
Indices: 729599--729637 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
729589 ATAATAGCAG
*
729599 TAATAAATGGTAATAATAT
1 TAATAAATAGTAATAATAT
* *
729618 TAATTAATATTAATAATAT
1 TAATAAATAGTAATAATAT
729637 T
1 T
729638 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
TAATAAATAGTAATAATAT
Found at i:729650 original size:19 final size:19
Alignment explanation
Indices: 729609--729652 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
729599 TAATAAATGG
* *
729609 TAATAATATTAATTAATAT
1 TAATAATATTAATTAAAAA
**
729628 TAATAATATTTTTTAAAAA
1 TAATAATATTAATTAAAAA
729647 TAATAA
1 TAATAA
729653 AAAATACGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATAATATTAATTAAAAA
Found at i:731071 original size:29 final size:29
Alignment explanation
Indices: 730740--731235 Score: 268
Period size: 29 Copynumber: 16.9 Consensus size: 29
730730 TTTGATCCTG
* *
730740 AACTTTCTAAAAAATACATTTTTACCCTTA
1 AACTTTC-CAAAATTACATTTTTACCCTTA
* * * *
730770 AACTTTCTAAAATTATATTTTAACCC-CA
1 AACTTTCCAAAATTACATTTTTACCCTTA
* ***
730798 AACTTTCTAAAAATTACATTTTTACCCCCG
1 AACTTTC-CAAAATTACATTTTTACCCTTA
* * * **
730828 AACTTTCCATAATTCCATTTTTTA-CATCG
1 AACTTTCCAAAATTACA-TTTTTACCCTTA
**
730857 ATTTTTCCAAAAATTACATTTTTACCCTTA
1 AACTTTCC-AAAATTACATTTTTACCCTTA
* *
730887 AAC-TTCCAAAATTCCAATTTTAACCC-TA
1 AACTTTCCAAAATTAC-ATTTTTACCCTTA
* **
730915 AAC-TTCCTAAAAATTACATTTTAACCCCCA
1 AACTTTCC--AAAATTACATTTTTACCCTTA
*
730945 AACTTTCCAAAAATTACATTTTTACCCCTA
1 AACTTTCC-AAAATTACATTTTTACCCTTA
*
730975 AAC---CCAAAAATGACATTTTTACCCTTA
1 AACTTTCC-AAAATTACATTTTTACCCTTA
* *
731002 AACTTTCCAAAATTCCATTTTTGACCCTGA
1 AACTTTCCAAAATTACATTTTT-ACCCTTA
* *
731032 TA--TCCCAAAAATTACATTTTTACCCTTA
1 AACTTTCC-AAAATTACATTTTTACCCTTA
* * *
731060 AACTTTACAAAATTCCATTTTTTAACCTCT-
1 AACTTTCCAAAATTACA-TTTTTACCCT-TA
** **
731090 ATTTTTCCATTAAATTACATTTTTACCCTCG
1 AACTTTCCA--AAATTACATTTTTACCCTTA
* * **
731121 AACCTTCCAAAATTCCATTTTTGA-CCTCG
1 AACTTTCCAAAATTACATTTTT-ACCCTTA
** *
731150 ATTTTTCCAAAAATTACCA-TTTTACCC-TG
1 AACTTTCC-AAAATTA-CATTTTTACCCTTA
* *
731179 AAC-TTCCAAAAATTCCATTTTTAACCCCTA
1 AACTTTCC-AAAATTACATTTTT-ACCCTTA
** *
731209 TTCTTCCCAAAATTACCA-TTTTACCCT
1 AACTTTCCAAAATTA-CATTTTTACCCT
731236 CGAGTGTCTA
Statistics
Matches: 368, Mismatches: 67, Indels: 63
0.74 0.13 0.13
Matches are distributed among these distances:
27 27 0.07
28 49 0.13
29 142 0.39
30 116 0.32
31 27 0.07
32 7 0.02
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.39
Consensus pattern (29 bp):
AACTTTCCAAAATTACATTTTTACCCTTA
Found at i:731221 original size:58 final size:57
Alignment explanation
Indices: 730748--731235 Score: 370
Period size: 58 Copynumber: 8.4 Consensus size: 57
730738 TGAACTTTCT
* * ** *
730748 AAAAAATACATTTTTACCCTTAAACTTTCTAAAATT--ATATTTTAACCCC-AAACTTTCT
1 AAAAATTACATTTTTACCC-TAAAC-TTCCAAAATTCCAT-TTTTAACCCCTATTC-TTCC
** * * ** * *
730806 AAAAATTACATTTTTACCCCCGAACTTTCCATAATTCCATTTTTTACATCGATTTTTCC
1 AAAAATTACATTTTTA-CCCTAAAC-TTCCAAAATTCCATTTTTAACCCCTATTCTTCC
* **
730865 AAAAATTACATTTTTACCCTTAAACTTCCAAAATTCCAATTTTAA-CCCTAAACTTCC
1 AAAAATTACATTTTTACCC-TAAACTTCCAAAATTCCATTTTTAACCCCTATTCTTCC
* * * **
730922 TAAAAATTACATTTTAACCCCCAAACTTTCCAAAAATTACATTTTT-ACCCCTAAAC--CC
1 -AAAAATTACATTTTTA-CCCTAAAC-TTCC-AAAATTCCATTTTTAACCCCTATTCTTCC
* *
730980 AAAAATGACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTGA-CCCTGATATC--CC
1 AAAAATTACATTTTTACCC-TAAAC-TTCCAAAATTCCATTTTTAACCCCT-AT-TCTTCC
* * *
731038 AAAAATTACATTTTTACCCTTAAACTTTACAAAATTCCATTTTTTAACCTCTATTTTTCC
1 AAAAATTACATTTTTACCC-TAAAC-TTCCAAAATTCCA-TTTTTAACCCCTATTCTTCC
* * * * * *
731098 ATTAAATTACATTTTTACCCTCGAACCTTCCAAAATTCCATTTTTGACCTCGATTTTTCC
1 A-AAAATTACATTTTTACCCT--AAACTTCCAAAATTCCATTTTTAACCCCTATTCTTCC
*
731158 AAAAATTACCA-TTTTACCCTGAACTTCCAAAAATTCCATTTTTAACCCCTATTCTTCC
1 AAAAATTA-CATTTTTACCCTAAACTTCC-AAAATTCCATTTTTAACCCCTATTCTTCC
*
731216 CAAAATTACCA-TTTTACCCT
1 AAAAATTA-CATTTTTACCCT
731236 CGAGTGTCTA
Statistics
Matches: 356, Mismatches: 51, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
56 20 0.06
57 37 0.10
58 153 0.43
59 63 0.18
60 51 0.14
61 29 0.08
62 3 0.01
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (57 bp):
AAAAATTACATTTTTACCCTAAACTTCCAAAATTCCATTTTTAACCCCTATTCTTCC
Found at i:731253 original size:119 final size:118
Alignment explanation
Indices: 730806--731238 Score: 304
Period size: 119 Copynumber: 3.7 Consensus size: 118
730796 CAAACTTTCT
*** * ** * * *
730806 AAAAATTACATTTTTACCCCCGAACTTTC-CATAATTCCATTTTTT-ACATCGATTTTTCCAAAA
1 AAAAATTACATTTTTACCCTTAAAC-TTCACAAAATTCCATTTTTTAACCCCTATTTTCCCATAA
* * ** * * * *
730869 ATTACATTTTTACCCT-TAAACTTCCAAAATTCCAATTTTAACCCT-AAACTTCCT
65 ATTACATTTTTACCCTCGAACCTAACAAAATTCCATTTTTGACCCTGATA--TCCC
* ** * ** *
730923 AAAAATTACATTTTAACCCCCAAACTTTC-CAAAAATTACA-TTTTT-ACCCCTA--AACCCAAA
1 AAAAATTACATTTTTACCCTTAAAC-TTCAC-AAAATTCCATTTTTTAACCCCTATTTTCCCATA
* ** * **
730983 AATGACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTGACCCTGATATCCC
64 AATTACATTTTTACCCTCGAACCTAACAAAATTCCATTTTTGACCCTGATATCCC
* * *
731038 AAAAATTACATTTTTACCCTTAAACTTTACAAAATTCCATTTTTTAACCTCTATTTTTCCATTAA
1 AAAAATTACATTTTTACCCTTAAACTTCACAAAATTCCATTTTTTAACCCCTATTTTCCCA-TAA
** * *
731103 ATTACATTTTTACCCTCGAACCTTCCAAAATTCCATTTTTGA-CCTCGATTTTTCC
65 ATTACATTTTTACCCTCGAACCTAACAAAATTCCATTTTTGACCCT-GA-TATCCC
*
731158 AAAAATTACCA-TTTTACCC-TGAACTTC-CAAAAATTCCA-TTTTTAACCCCTATTCTTCCCA-
1 AAAAATTA-CATTTTTACCCTTAAACTTCAC-AAAATTCCATTTTTTAACCCCTATT-TTCCCAT
731218 AAATTACCA-TTTTACCCTCGA
63 AAATTA-CATTTTTACCCTCGA
731239 GTGTCTAATA
Statistics
Matches: 263, Mismatches: 38, Indels: 30
0.79 0.11 0.09
Matches are distributed among these distances:
114 10 0.04
115 52 0.20
116 30 0.11
117 57 0.22
118 30 0.11
119 62 0.24
120 20 0.08
121 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (118 bp):
AAAAATTACATTTTTACCCTTAAACTTCACAAAATTCCATTTTTTAACCCCTATTTTCCCATAAA
TTACATTTTTACCCTCGAACCTAACAAAATTCCATTTTTGACCCTGATATCCC
Found at i:735137 original size:24 final size:27
Alignment explanation
Indices: 735110--735159 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 27
735100 GAAAGAATTA
*
735110 CAAGATCAAATG-CAA-GA-GCGCATC
1 CAAGAACAAATGACAATGATGCGCATC
735134 CAAGAACAAATGACAATGATGCGCAT
1 CAAGAACAAATGACAATGATGCGCAT
735160 GGAAATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 2 0.09
27 6 0.27
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.14
Consensus pattern (27 bp):
CAAGAACAAATGACAATGATGCGCATC
Found at i:743283 original size:194 final size:192
Alignment explanation
Indices: 742935--743778 Score: 735
Period size: 206 Copynumber: 4.2 Consensus size: 192
742925 GATTATCCAC
* *
742935 AAAC-AGTGTGGCGATCATCTTCTTGATGAGATACAGAGAAGTATACCAACTCAATGCGAACAAA
1 AAACAAGTGAGGCGATCATCTTCTTGATGAGATACAGAGAAGTATATCAACTCAATGCGAACAAA
**
742999 TCTTCGACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGGCAAAGCAATAAAAAGGTTAGCTTC
66 TCTTCGACCCCAGCTTCCTGATGAGATACTGAGAAG-AGGGTGAAGCAATAAAAAGGTTAGCTTC
*
743064 CTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTAATGAGGTACAGAAAAGCGGATTG
130 CTGATGAGATACTAAGAAGTGGACCAAATTCATCTTCCTAATGAGGTACAGAAAAGCGGATTG
* *
743127 AAACAAGTGAGGCGGTCATCCTCTTGATGAGATACAGAGAAGTATATCAACTCAATGCGAACAAA
1 AAACAAGTGAGGCGATCATCTTCTTGATGAGATACAGAGAAGTATATCAACTCAATGCGAACAAA
*
743192 TCTTCGACCCCTAGCTTCATGATGAGATACTGAGAAGTAGGGTGAAGCAATAAAAAGGTTAGCTT
66 TCTTCGACCCC-AGCTTCCTGATGAGATACTGAGAAG-AGGGTGAAGCAATAAAAAGGTTAGCTT
* * *
743257 CCTGATGAGACACTGAGAAGTGGACCAAATTTATCTTCCTAATGAGGTACAGAGAAA-CGGATTG
129 CCTGATGAGATACTAAGAAGTGGACCAAATTCATCTTCCTAATGAGGTACAGA-AAAGCGGATTG
** * *
743321 AAACAAACGGGGCGATCATCTTCCTT-ATAAGATACTA-AGAAGTAGACCAAATCAATGAAACAA
1 AAACAAGTGAGGCGATCATCTT-CTTGATGAGATAC-AGAGAAGT-------AT--AT----C-A
* * * * * * *
743384 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAAATATTAAGAAGAAGGTCGAAG
50 A--CTCAATGCGAACAAATCTTCG-ACCCCAGCTTCCTGATGAGATACTGAGAAGAGGGT-GAAG
* * *
743449 CAATAAAATGGTTAGCTTCCTGATGAGATACTAAGAAGTGAACCAAATTCATCTTCCTAATGAGA
111 CAATAAAAAGGTTAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCATCTTCCTAATGAGG
*
743514 TACAGAGAAGCGGATTG
176 TACAGAAAAGCGGATTG
** * * * * * *
743531 AAACAAGCAATGCGATCATCTTCCTAAAGAGATACTAAGAAGAAGACCAAATCAAACCCACGCTC
1 AAACAAGTGAGGCGATCATCTTCTTGATGAGATAC--AG-AGAAG--TATATC--A---A--CTC
* * ** * *
743596 GATGTGAGGAAATTTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCA-GGTCGAAGCAATA
54 AATGCGAACAAATCTTCG-ACCCCAGCTTCCTGATGAGATACTGAGAAG-AGGGT-GAAGCAATA
* * * * ** * * ** * * ***
743660 AAATGATTAGCTTCTTGATAAGATACGGAGAAGTGAACCAAATCCGGCCTCCTGATGAAACACAG
116 AAAAGGTTAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCATCTTCCTAATGAGGTACAG
* * **
743725 AGAAGTGGATCA
181 AAAAGCGGATTG
* * * *
743737 AAACAAGTGATGTGGTCATCTTCTTGATGAGATACTGAGAAG
1 AAACAAGTGAGGCGATCATCTTCTTGATGAGATACAGAGAAG
743779 AAGGCCAAGT
Statistics
Matches: 542, Mismatches: 75, Indels: 59
0.80 0.11 0.09
Matches are distributed among these distances:
192 4 0.01
193 67 0.12
194 136 0.25
195 7 0.01
201 2 0.00
202 1 0.00
203 9 0.02
204 1 0.00
206 151 0.28
207 2 0.00
208 3 0.01
209 8 0.01
210 140 0.26
211 6 0.01
213 5 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (192 bp):
AAACAAGTGAGGCGATCATCTTCTTGATGAGATACAGAGAAGTATATCAACTCAATGCGAACAAA
TCTTCGACCCCAGCTTCCTGATGAGATACTGAGAAGAGGGTGAAGCAATAAAAAGGTTAGCTTCC
TGATGAGATACTAAGAAGTGGACCAAATTCATCTTCCTAATGAGGTACAGAAAAGCGGATTG
Found at i:744154 original size:17 final size:17
Alignment explanation
Indices: 744116--744193 Score: 88
Period size: 17 Copynumber: 4.7 Consensus size: 17
744106 GGCCCAACAG
744116 AATTTAAATTTA--TTA
1 AATTTAAATTTATTTTA
*
744131 AAATTAAATTTATTTTA
1 AATTTAAATTTATTTTA
* * *
744148 AGTTTAAATTTACTTAA
1 AATTTAAATTTATTTTA
*
744165 AATTTAAATTTATTATA
1 AATTTAAATTTATTTTA
*
744182 AATTTAAGTTTA
1 AATTTAAATTTA
744194 AAACTATTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
15 11 0.22
17 40 0.78
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
AATTTAAATTTATTTTA
Found at i:744177 original size:34 final size:32
Alignment explanation
Indices: 744116--744193 Score: 111
Period size: 34 Copynumber: 2.4 Consensus size: 32
744106 GGCCCAACAG
*
744116 AATTTAAATTTATTAAAATTAAATTTATTTTA
1 AATTTAAATTTATTAAAATTAAATTTATTATA
*
744148 AGTTTAAATTTACTTAAAATTTAAATTTATTATA
1 AATTTAAATTTA-TTAAAA-TTAAATTTATTATA
*
744182 AATTTAAGTTTA
1 AATTTAAATTTA
744194 AAACTATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 11 0.28
33 6 0.15
34 23 0.57
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (32 bp):
AATTTAAATTTATTAAAATTAAATTTATTATA
Found at i:744875 original size:3 final size:3
Alignment explanation
Indices: 744869--744896 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
744859 AAATATATTA
744869 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
744897 GCAGCAATAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:746063 original size:30 final size:30
Alignment explanation
Indices: 746022--746135 Score: 130
Period size: 29 Copynumber: 3.9 Consensus size: 30
746012 AAATTTCTCC
746022 AAAATTAT-TTTTTGACCT-GAACTTTTTG
1 AAAATTATATTTTTGACCTCGAACTTTTTG
**
746050 AAAATTATATTTTT-ACCCTCGAAC-TTTCC
1 AAAATTATATTTTTGA-CCTCGAACTTTTTG
746079 AAAATTATATTTTTGACCTCGAACTTTTTG
1 AAAATTATATTTTTGACCTCGAACTTTTTG
* * *
746109 AAAACTACATTTTT-ACCCACGAACTTT
1 AAAATTATATTTTTGA-CCTCGAACTTT
746136 CCATAATTCC
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
28 9 0.12
29 34 0.47
30 30 0.41
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (30 bp):
AAAATTATATTTTTGACCTCGAACTTTTTG
Found at i:746082 original size:29 final size:29
Alignment explanation
Indices: 746050--746496 Score: 249
Period size: 29 Copynumber: 15.1 Consensus size: 29
746040 GAACTTTTTG
* *
746050 AAAATTATATTTTTACCCTCGAACTTTCC
1 AAAATTACATTTTTACCCTCAAACTTTCC
* * **
746079 AAAATTATATTTTTGA-CCTCGAACTTTTTG
1 AAAATTACATTTTT-ACCCTCAAAC-TTTCC
* * *
746109 AAAACTACATTTTTACCCACGAACTTTCC
1 AAAATTACATTTTTACCCTCAAACTTTCC
* * ** **
746138 ATAATTCCATTTTTTTTA-CCTTTATTTTTCC
1 AAAATTACA---TTTTTACCCTCAAACTTTCC
*
746169 AAAAAATTACATTTTTATCCTCAAACTTTCC
1 --AAAATTACATTTTTACCCTCAAACTTTCC
** **
746200 AAAATTACATTTTTGACCCT-AAGGTTCTTA
1 AAAATTACATTTTT-ACCCTCAAACTT-TCC
*
746230 AAAATTACATTTTTACCC-CAAAACATTCC
1 AAAATTACATTTTTACCCTC-AAACTTTCC
*
746259 -AAATTCCATTTTTTACCCT-AAACTTTCC
1 AAAATTACA-TTTTTACCCTCAAACTTTCC
*
746287 AAAAATTACA-TTTTACCCCCAAAACTTTCC
1 -AAAATTACATTTTTACCCTC-AAACTTTCC
* * * **
746317 AAAATTCCATTTTTAACAT-TGA-TTTCCC
1 AAAATTACATTTTTACCCTCAAACTTT-CC
*
746345 AAAAATTACATTTTTACCCT-AAAATTTCC
1 -AAAATTACATTTTTACCCTCAAACTTTCC
**
746374 AAAATT-CTATTTTTTAACCCT-AATTTTTCC
1 AAAATTAC-A-TTTTT-ACCCTCAAACTTTCC
* *
746404 AAAAAATACATTTTTACCCTCAAACCTTCC
1 -AAAATTACATTTTTACCCTCAAACTTTCC
* **
746434 AAAATTCCATTTTTGACCCT-AATTTTTTCC
1 AAAATTACATTTTT-ACCCTCAA-ACTTTCC
*
746464 AAAAATTATCA-TTTTACCCCCAAAC-TTCC
1 -AAAATTA-CATTTTTACCCTCAAACTTTCC
746493 AAAA
1 AAAA
746497 ATTCTATTTT
Statistics
Matches: 323, Mismatches: 61, Indels: 69
0.71 0.13 0.15
Matches are distributed among these distances:
27 4 0.01
28 37 0.11
29 119 0.37
30 112 0.35
31 35 0.11
32 9 0.03
33 7 0.02
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAATTACATTTTTACCCTCAAACTTTCC
Found at i:746271 original size:28 final size:29
Alignment explanation
Indices: 746171--746515 Score: 187
Period size: 30 Copynumber: 11.7 Consensus size: 29
746161 ATTTTTCCAA
*
746171 AAAATTACATTTTTATCCTC-AAACTTTCC
1 AAAATTACATTTTTA-CCCCAAAACTTTCC
* ** **
746200 AAAATTACATTTTTGA-CCCTAAGGTTCTTA
1 AAAATTACATTTTT-ACCCCAAAACTT-TCC
*
746230 AAAATTACATTTTTACCCCAAAACATTCC
1 AAAATTACATTTTTACCCCAAAACTTTCC
* *
746259 -AAATTCCATTTTTTA-CCCTAAACTTTCC
1 AAAATTACA-TTTTTACCCCAAAACTTTCC
746287 AAAAATTACA-TTTTACCCCCAAAACTTTCC
1 -AAAATTACATTTTTA-CCCCAAAACTTTCC
* * **
746317 AAAATTCCATTTTTA--ACATTGA-TTTCCC
1 AAAATTACATTTTTACCCCA-AAACTTT-CC
*
746345 AAAAATTACATTTTTACCCTAAAA-TTTCC
1 -AAAATTACATTTTTACCCCAAAACTTTCC
* * **
746374 AAAATT-CTATTTTTTAACCCTAATTTTTCC
1 AAAATTAC-A-TTTTTACCCCAAAACTTTCC
* *
746404 AAAAAATACATTTTTACCCTC-AAACCTTCC
1 -AAAATTACATTTTTACCC-CAAAACTTTCC
* * ***
746434 AAAATTCCATTTTTGACCCTAATTTTTTCC
1 AAAATTACATTTTT-ACCCCAAAACTTTCC
*
746464 AAAAATTATCA-TTTTACCCCCAAAC-TTCC
1 -AAAATTA-CATTTTTACCCCAAAACTTTCC
746493 AAAAATT-CTATTTTTAACCCCAA
1 -AAAATTAC-ATTTTT-ACCCCAA
746516 TTTTTTCCAA
Statistics
Matches: 240, Mismatches: 48, Indels: 55
0.70 0.14 0.16
Matches are distributed among these distances:
27 7 0.03
28 36 0.15
29 87 0.36
30 89 0.37
31 18 0.08
32 3 0.01
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTTACCCCAAAACTTTCC
Found at i:746520 original size:59 final size:58
Alignment explanation
Indices: 746050--746571 Score: 416
Period size: 59 Copynumber: 8.8 Consensus size: 58
746040 GAACTTTTTG
* * * ** * * *
746050 AAAATTATATTTTTACCCTCGAACTTTCCAAAATTATATTTTTGACCTCGAACTTTTT--G
1 AAAATTACATTTTTACCCCCAAAC-TTCCAAAATTCCATTTTTAACC-CTAA-TTTTTCCA
* * * * * * *
746109 AAAACTACATTTTTACCCACGAACTTTCCATAATTCCATTTTTTTTACCTTTATTTTTCCAA
1 AAAATTACATTTTTACCCCCAAAC-TTCCAAAATTCCA--TTTTTAACCCTAATTTTTCC-A
* * * * *
746171 AAAATTACATTTTTATCCTCAAACTTTCCAAAATTACATTTTTGACCCTAAGGTTCTT--A
1 AAAATTACATTTTTACCCCCAAAC-TTCCAAAATTCCATTTTTAACCCTAA--TTTTTCCA
* * **
746230 AAAATTACATTTTTACCCCAAAACATTCC-AAATTCCATTTTTTACCCTAAACTTTCCA
1 AAAATTACATTTTTACCCCCAAAC-TTCCAAAATTCCATTTTTAACCCTAATTTTTCCA
** * *
746288 AAAATTACA-TTTTACCCCCAAAACTTTCCAAAATTCCATTTTTAACATTGA-TTTCCCA
1 AAAATTACATTTTTACCCCC-AAAC-TTCCAAAATTCCATTTTTAACCCTAATTTTTCCA
** * *
746346 AAAATTACATTTTTACCCTAAAATTTCCAAAATTCTATTTTTTAACCCTAATTTTTCCA
1 AAAATTACATTTTTACCCCCAAACTTCCAAAATTCCA-TTTTTAACCCTAATTTTTCCA
* * *
746405 AAAAATACATTTTTACCCTCAAACCTTCCAAAATTCCATTTTTGACCCTAATTTTTTCCA
1 AAAATTACATTTTTACCCCCAAA-CTTCCAAAATTCCATTTTTAACCCTAA-TTTTTCCA
* *
746465 AAAATTATCA-TTTTACCCCCAAACTTCCAAAAATTCTATTTTTAACCCCAATTTTTTCCA
1 AAAATTA-CATTTTTACCCCCAAACTTCC-AAAATTCCATTTTTAACCCTAA-TTTTTCCA
* * * *
746525 AAAATTCCCA-TTTTACCCCCGAA-TGTCTAAAATTCCATCTTTAACCC
1 AAAATT-ACATTTTTACCCCCAAACT-TCCAAAATTCCATTTTTAACCC
746572 CGAACTTTCC
Statistics
Matches: 382, Mismatches: 61, Indels: 40
0.79 0.13 0.08
Matches are distributed among these distances:
56 2 0.01
57 21 0.05
58 64 0.17
59 150 0.39
60 99 0.26
61 10 0.03
62 36 0.09
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.40
Consensus pattern (58 bp):
AAAATTACATTTTTACCCCCAAACTTCCAAAATTCCATTTTTAACCCTAATTTTTCCA
Found at i:746539 original size:31 final size:31
Alignment explanation
Indices: 746259--746538 Score: 135
Period size: 29 Copynumber: 9.4 Consensus size: 31
746249 AAAACATTCC
* * **
746259 AAATTCCATTTTTTACCCTAA-ACTTTCCAA
1 AAATTCCATTTTTAACCCCAATTTTTTCCAA
* * ***
746289 AAATTACA-TTTTACCCCCAAAACTTTCC-A
1 AAATTCCATTTTTAACCCCAATTTTTTCCAA
*
746318 AAATTCCATTTTTAA---C-ATTGATTTCCCAA
1 AAATTCCATTTTTAACCCCAATT--TTTTCCAA
* * **
746347 AAATTACATTTTT-ACCCTAA-AATTTCC-A
1 AAATTCCATTTTTAACCCCAATTTTTTCCAA
* *
746375 AAATTCTATTTTTTAACCCTAA-TTTTTCCAA
1 AAATTCCA-TTTTTAACCCCAATTTTTTCCAA
* * ***
746406 AAAATACATTTTT-ACCCTCAA-ACCTTCC-A
1 AAATTCCATTTTTAACCC-CAATTTTTTCCAA
* *
746435 AAATTCCATTTTTGACCCTAATTTTTTCCAA
1 AAATTCCATTTTTAACCCCAATTTTTTCCAA
* * **
746466 AAATTATCA-TTTTACCCCCAA--ACTTCCAA
1 AAATT-CCATTTTTAACCCCAATTTTTTCCAA
*
746495 AAATTCTATTTTTAACCCCAATTTTTTCCAA
1 AAATTCCATTTTTAACCCCAATTTTTTCCAA
746526 AAATTCCCATTTT
1 AAATT-CCATTTT
746539 ACCCCCGAAT
Statistics
Matches: 185, Mismatches: 44, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
26 1 0.01
27 1 0.01
28 13 0.07
29 79 0.43
30 50 0.27
31 32 0.17
32 9 0.05
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.40
Consensus pattern (31 bp):
AAATTCCATTTTTAACCCCAATTTTTTCCAA
Found at i:761813 original size:2 final size:2
Alignment explanation
Indices: 761808--761834 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
761798 TATATATATA
761808 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
761835 ATACGAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:762344 original size:12 final size:12
Alignment explanation
Indices: 762304--762345 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
762294 GACGTGGCGA
762304 TGACGTGGCAT-
1 TGACGTGGCATG
762315 TGACGTGGGCATG
1 TGACGT-GGCATG
*
762328 CTGACGTGGAATG
1 -TGACGTGGCATG
762341 TGACG
1 TGACG
762346 GCTAGAGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.22
12 10 0.37
13 5 0.19
14 6 0.22
ACGTcount: A:0.19, C:0.17, G:0.40, T:0.24
Consensus pattern (12 bp):
TGACGTGGCATG
Found at i:762522 original size:18 final size:17
Alignment explanation
Indices: 762501--762537 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
762491 TTTCAGAATT
*
762501 TTATTTTATTTTTATTTA
1 TTATTATATTTTT-TTTA
762519 TTATTATATTTTTTTTA
1 TTATTATATTTTTTTTA
762536 TT
1 TT
762538 TTTGAGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTATATTTTTTTTA
Found at i:764540 original size:20 final size:21
Alignment explanation
Indices: 764504--764542 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
764494 ATTTATTCAT
764504 AAATTTTAAAATATTTAATTA
1 AAATTTTAAAATATTTAATTA
764525 AAATTTTAAAAT-TTTAAT
1 AAATTTTAAAATATTTAAT
764543 ATCATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTTTAAAATATTTAATTA
Found at i:764771 original size:20 final size:20
Alignment explanation
Indices: 764746--764798 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
764736 AAGTACAAAC
* *
764746 ATGTTTAAAATTTGATCCGT
1 ATGTTTTAAATTTGATCCGG
*
764766 ATGTTTTAAATTTGATTCGG
1 ATGTTTTAAATTTGATCCGG
764786 ATGTTTTAAATTT
1 ATGTTTTAAATTT
764799 ATGTGTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (20 bp):
ATGTTTTAAATTTGATCCGG
Found at i:765497 original size:15 final size:14
Alignment explanation
Indices: 765460--765489 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
765450 TGTTTGACTG
765460 AAAATAATTTTCGA
1 AAAATAATTTTCGA
*
765474 AAAATAATTTTTGA
1 AAAATAATTTTCGA
765488 AA
1 AA
765490 GATGAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (14 bp):
AAAATAATTTTCGA
Found at i:770747 original size:23 final size:24
Alignment explanation
Indices: 770702--770747 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
770692 TTATAATTTG
*
770702 TTTTTTTTATAAATATTTTTTGAA
1 TTTTTTTTATAAATATTTGTTGAA
* *
770726 TTTTTTTTGTAAGT-TTTGTTGA
1 TTTTTTTTATAAATATTTGTTGA
770748 GAGAGAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (24 bp):
TTTTTTTTATAAATATTTGTTGAA
Found at i:775157 original size:4 final size:4
Alignment explanation
Indices: 775150--775175 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
775140 TATTTATTTA
775150 TTGT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TT
775176 ATTATTCATT
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:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTGT
Found at i:775382 original size:27 final size:28
Alignment explanation
Indices: 775317--775387 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 28
775307 ACATAATTTT
775317 AAATAAACAAATAA-AAACAAAAATTTAAA
1 AAATAAACAAA-AATAAAC-AAAATTTAAA
** *
775346 ATTCTTAACAAAAATAAAC-AAATTTAAA
1 A-AATAAACAAAAATAAACAAAATTTAAA
775374 AAATAAACAAAAAT
1 AAATAAACAAAAAT
775388 TTATTCATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
27 10 0.29
28 10 0.29
29 3 0.09
30 11 0.32
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.21
Consensus pattern (28 bp):
AAATAAACAAAAATAAACAAAATTTAAA
Found at i:775410 original size:15 final size:17
Alignment explanation
Indices: 775390--775423 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
775380 ACAAAAATTT
775390 ATTCATTTA-AA-CTTA
1 ATTCATTTATAATCTTA
775405 ATTCATTTATAATCTTA
1 ATTCATTTATAATCTTA
775422 AT
1 AT
775424 GGATAGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTCATTTATAATCTTA
Found at i:798361 original size:18 final size:17
Alignment explanation
Indices: 798338--798386 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
798328 AACTTCACCC
*
798338 AAAAAAAACAAAAAATA
1 AAAAAAAAAAAAAAATA
*
798355 AAAAAAAGGAAAAAAATA
1 AAAAAAA-AAAAAAAATA
798373 GAAAAAAAGAAAAA
1 -AAAAAAA-AAAAA
798387 GAAAAGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 12 0.44
ACGTcount: A:0.86, C:0.02, G:0.08, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAAAAAATA
Found at i:798377 original size:27 final size:26
Alignment explanation
Indices: 798338--798422 Score: 89
Period size: 30 Copynumber: 3.0 Consensus size: 26
798328 AACTTCACCC
* *
798338 AAAAAAAACAAAAAATAAAAAAAAGG
1 AAAAAAAAGAAAAAAAAAAAAAAAGG
798364 AAAAAAATAGAAAAAAAGAAAAAGAAAAGG
1 AAAAAAA-AG-AAAAAA-AAAAA-AAAAGG
798394 AAAAAAGAAGAAAAGAAAAAGAAAAAAGG
1 AAAAAA-AAGAAAA-AAAAA-AAAAAAGG
798423 GAGGTCAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
26 7 0.14
27 1 0.02
28 6 0.12
29 17 0.34
30 18 0.36
31 1 0.02
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.02
Consensus pattern (26 bp):
AAAAAAAAGAAAAAAAAAAAAAAAGG
Found at i:798385 original size:6 final size:6
Alignment explanation
Indices: 798376--798419 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
798366 AAAAATAGAA
*
798376 AAAAAG AAAAAG AAAAGG AAAAAAG AAGAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG -AAAAAG -A-AAAAG AAAAAG AAAAA
798420 AGGGAGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 21 0.62
7 8 0.24
8 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:798391 original size:22 final size:20
Alignment explanation
Indices: 798355--798420 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 20
798345 ACAAAAAATA
* *
798355 AAAAAAAGGAAA-AAAATAG
1 AAAAAAAGAAAAGAAAAAAG
798374 AAAAAAAGAAAAAGAAAAGGAA-
1 AAAAAAAG-AAAAGAAAA--AAG
*
798396 AAAAGAAGAAAAG-AAAAAG
1 AAAAAAAGAAAAGAAAAAAG
798415 AAAAAA
1 AAAAAA
798421 GGGAGGTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 2 0.05
19 13 0.34
20 6 0.16
21 9 0.24
22 7 0.18
23 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAAAAAGAAAAGAAAAAAG
Found at i:798421 original size:21 final size:20
Alignment explanation
Indices: 798348--798420 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
798338 AAAAAAAACA
*
798348 AAAAATAAAAAAAAGGAAAA-
1 AAAAAGAAAAAAAA-GAAAAG
*
798368 AAATAG-AAAAAAAGAAAAAG
1 AAAAAGAAAAAAAAG-AAAAG
*
798388 AAAAGGAAAAAAGAAGAAAAG
1 AAAAAGAAAAAA-AAGAAAAG
798409 AAAAAGAAAAAA
1 AAAAAGAAAAAA
798421 GGGAGGTCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.02
19 11 0.25
20 8 0.18
21 21 0.48
22 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAAGAAAAAAAAGAAAAG
Found at i:799514 original size:49 final size:50
Alignment explanation
Indices: 799311--799514 Score: 134
Period size: 49 Copynumber: 4.2 Consensus size: 50
799301 TGTTTGAAGA
** * * * *
799311 GAAAGATTGAAGTCGCAATAGCAAATC-TGATATCCTAGAG-ATATG-AAG
1 GAAAGATTGAAGTCGCAACGGCGAACCTTG-TACCCTAGAGTATGTGAAAG
* * * * * * **
799359 AGAAAGGTTAAAGTTGCAACGGCGAACCTTGTACCTTAG-GAACGTGATGG
1 -GAAAGATTGAAGTCGCAACGGCGAACCTTGTACCCTAGAGTATGTGAAAG
* * ** * * *
799409 GAAATATTGAAGCCGTGACGGTGAATCTTGTACCCTAGAGTTATG-GAGA-
1 GAAAGATTGAAGTCGCAACGGCGAACCTTGTACCCTAGAG-TATGTGAAAG
*
799458 GATAGATTGAAGTCGCAACGGCGAACCTTGTACCCTAGAG-ATGTGAAAG
1 GAAAGATTGAAGTCGCAACGGCGAACCTTGTACCCTAGAGTATGTGAAAG
799507 GAAAGATT
1 GAAAGATT
799515 AAGGCCACAA
Statistics
Matches: 112, Mismatches: 36, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
47 3 0.03
48 4 0.04
49 97 0.87
50 6 0.05
51 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (50 bp):
GAAAGATTGAAGTCGCAACGGCGAACCTTGTACCCTAGAGTATGTGAAAG
Found at i:799532 original size:98 final size:98
Alignment explanation
Indices: 799344--799535 Score: 217
Period size: 98 Copynumber: 2.0 Consensus size: 98
799334 AATCTGATAT
* * * **
799344 CCTAGAGATATGAAGAGAAAGGTTAAAGTTGCAACGGCGAACCTTGTACCTTAGGAACGTGATGG
1 CCTAGAGATATGAAGAGAAAGATTAAAGTCGCAACGGCGAACCTTGTACCCTAGGAACGTGAAAG
* *** *
799409 GAAATATTGAAGCCGTGACGGTGAATCTTGTAC
66 GAAAGATTGAAGCCACAACGATGAATCTTGTAC
* * * * *
799442 CCTAGAGTTATGGAGAGATAGATTGAAGTCGCAACGGCGAACCTTGTACCCTA-GAGATGTGAAA
1 CCTAGAGATATGAAGAGAAAGATTAAAGTCGCAACGGCGAACCTTGTACCCTAGGA-ACGTGAAA
799506 GGAAAGATT-AAGGCCACAACGATGAATCTT
65 GGAAAGATTGAA-GCCACAACGATGAATCTT
799536 ACACCCTGAA
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
97 4 0.05
98 73 0.95
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (98 bp):
CCTAGAGATATGAAGAGAAAGATTAAAGTCGCAACGGCGAACCTTGTACCCTAGGAACGTGAAAG
GAAAGATTGAAGCCACAACGATGAATCTTGTAC
Found at i:799868 original size:40 final size:40
Alignment explanation
Indices: 799813--800106 Score: 357
Period size: 40 Copynumber: 7.4 Consensus size: 40
799803 GCAAGTTACA
*
799813 ACCATCCAATCTTTTACCCTAATAAGAGGGCAAATTGAAG
1 ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAG
* * *
799853 ACCATCTAATCTTTTACCCTAATCAGAGGGCAGATTAAAG
1 ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAG
*
799893 ACCATCCAATCTTTTACCCTAATTAGAGGGCAAATTGAAG
1 ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAG
* *
799933 ACCATCCAATCTTTTACCCTAATTAGAGGGCAGATTGAAG
1 ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAG
* *
799973 ACCATCCAATCTTTTACCCTAATCAGAAGGCATATTGAAG
1 ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAG
* * * * * *
800013 ACAATCCAATCTTTTATCCC-GATC-GTGGGGTAGATTAAAG
1 ACCATCCAATCTTTTA-CCCTAATCAG-AGGGCAAATTGAAG
*
800053 TA--ATCCAATCTTTTACCCTAAGT-AGAGGGCAGATTGAAG
1 -ACCATCCAATCTTTTACCCTAA-TCAGAGGGCAAATTGAAG
800092 ACCAT-CAGATCTTTT
1 ACCATCCA-ATCTTTT
800107 TGAAGACCAT
Statistics
Matches: 222, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.02
39 28 0.13
40 186 0.84
41 4 0.02
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (40 bp):
ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAG
Found at i:799946 original size:80 final size:80
Alignment explanation
Indices: 799813--800398 Score: 458
Period size: 80 Copynumber: 7.1 Consensus size: 80
799803 GCAAGTTACA
* *
799813 ACCATCCAATCTTTTACCCTAATAAGAGGGCAAATTGAAGACCATCTAATCTTTTACCCTAATCA
1 ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGACCATCCAATCTTTTACCCTAATCA
*
799878 GAGGGCAGATTAAAG
66 GAGGGCAGATTGAAG
* *
799893 ACCATCCAATCTTTTACCCTAATTAGAGGGCAAATTGAAGACCATCCAATCTTTTACCCTAATTA
1 ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGACCATCCAATCTTTTACCCTAATCA
799958 GAGGGCAGATTGAAG
66 GAGGGCAGATTGAAG
* * * *
799973 ACCATCCAATCTTTTACCCTAATCAGAAGGCATATTGAAGACAATCCAATCTTTTATCCC-GATC
1 ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGACCATCCAATCTTTTA-CCCTAATC
* * *
800037 -GTGGGGTAGATTAAAG
65 AG-AGGGCAGATTGAAG
*
800053 TA--ATCCAATCTTTTACCCTAAGT-AGAGGGCAGATTGAAGACCAT-CAGATCTTTTTGAAGAC
1 -ACCATCCAATCTTTTACCCTAA-TCAGAGGGCAAATTGAAGACCATCCA-ATC-TTTT----AC
*
800114 CATCTAATCTTTTACTATAACCAGAGGGCAGATTGAAG
58 C--CTAA-----T-C----A-GAG--GGCAGATTGAAG
* * * ** * * * * *
800152 ACCATCCAATCTGTTACCCTTACCATCGAGCAGATTAAAG-CAATCCAATCTTTTACCCTAACCA
1 ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGACCATCCAATCTTTTACCCTAATCA
* *
800216 AAAGGCAGATTGAAG
66 GAGGGCAGATTGAAG
* * * * * **
800231 ACCATCCAATCTCTTACCCTGACCATG-GGGCAAATTAAAG-CAATCCAATCTTTTACCCCGATC
1 ACCATCCAATCTTTTACCCTAATCA-GAGGGCAAATTGAAGACCATCCAATCTTTTACCCTAATC
*
800294 ATG-GGGCAAATTGAAG
65 A-GAGGGCAGATTGAAG
* * * *
800310 -CAATCCAATCTTTTACCCTAGTCAAGAGGGGCAGATTGAAGACCATCCAATCTTTTACCCCTAG
1 ACCATCCAATCTTTTACCCTAATC-AGA-GGGCAAATTGAAGACCATCCAATCTTTTA-CCCTAA
800374 TCAAGAGGGGCAGATTGAA-
63 TC-AGA-GGGCAGATTGAAG
800393 ACCATC
1 ACCATC
800399 TTCCTGATGA
Statistics
Matches: 408, Mismatches: 56, Indels: 80
0.75 0.10 0.15
Matches are distributed among these distances:
78 21 0.05
79 120 0.29
80 157 0.38
81 19 0.05
82 7 0.02
83 3 0.01
84 16 0.04
85 1 0.00
86 2 0.00
91 1 0.00
92 5 0.01
94 3 0.01
97 1 0.00
98 5 0.01
99 16 0.04
100 31 0.08
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (80 bp):
ACCATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGACCATCCAATCTTTTACCCTAATCA
GAGGGCAGATTGAAG
Found at i:800111 original size:20 final size:20
Alignment explanation
Indices: 800086--800126 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
800076 AGAGGGCAGA
800086 TTGAAGACCATC-AGATCTTT
1 TTGAAGACCATCTA-ATCTTT
800106 TTGAAGACCATCTAATCTTT
1 TTGAAGACCATCTAATCTTT
800126 T
1 T
800127 ACTATAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (20 bp):
TTGAAGACCATCTAATCTTT
Found at i:800163 original size:40 final size:40
Alignment explanation
Indices: 800106--800398 Score: 247
Period size: 39 Copynumber: 7.3 Consensus size: 40
800096 TCAGATCTTT
* **
800106 TTGAAGACCATCTAATCTTTTACTATAACCAGAGGGCAGA
1 TTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGCAGA
* * ** *
800146 TTGAAGACCATCCAATCTGTTACCCTTACCATCGAGCAGA
1 TTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGCAGA
* * * *
800186 TTAAAG-CAATCCAATCTTTTACCCTAACCAAAAGGCAGA
1 TTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGCAGA
* * *
800225 TTGAAGACCATCCAATCTCTTACCCTGACCATG-GGGCAAA
1 TTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGCAGA
* * ** * *
800265 TTAAAG-CAATCCAATCTTTTACCCCGATCATG-GGGCAAA
1 TTGAAGACCATCCAATCTTTTACCCTAACCA-GAGGGCAGA
* * *
800304 TTGAAG-CAATCCAATCTTTTACCCTAGTCAAGAGGGGCAGA
1 TTGAAGACCATCCAATCTTTTACCCTA-ACCAGA-GGGCAGA
* *
800345 TTGAAGACCATCCAATCTTTTACCCCTAGTCAAGAGGGGCAGA
1 TTGAAGACCATCCAATCTTTTA-CCCTA-ACCAGA-GGGCAGA
800388 TTGAA-ACCATC
1 TTGAAGACCATC
800399 TTCCTGATGA
Statistics
Matches: 210, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
39 84 0.40
40 69 0.33
41 12 0.06
42 20 0.10
43 25 0.12
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
TTGAAGACCATCCAATCTTTTACCCTAACCAGAGGGCAGA
Found at i:800223 original size:139 final size:139
Alignment explanation
Indices: 799967--800236 Score: 353
Period size: 139 Copynumber: 1.9 Consensus size: 139
799957 AGAGGGCAGA
* * * *
799967 TTGAAGACCATCCAATCTTTTACCCTAATCAGAAGGCATATTGAAGACAATCCAATCTTTTATCC
1 TTGAAGACCATCCAATCTTTTACCATAACCAGAAGGCAGATTGAAGACAATCCAATCTGTTATCC
* * * * * * ** * *
800032 CGATCGTGGGGTAGATTAAAGTAATCCAATCTTTTACCCTAAGTAGAGGGCAGATTGAAGACCAT
66 CGACCATCGAGCAGATTAAAGCAATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCAT
800097 CAGATCTTT
131 CAGATCTTT
* * * *
800106 TTGAAGACCATCTAATCTTTTACTATAACCAGAGGGCAGATTGAAGACCATCCAATCTGTTA-CC
1 TTGAAGACCATCCAATCTTTTACCATAACCAGAAGGCAGATTGAAGACAATCCAATCTGTTATCC
*
800170 CTTACCATCGAGCAGATTAAAGCAATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCA
66 C-GACCATCGAGCAGATTAAAGCAATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCA
800235 TC
130 TC
800237 CAATCTCTTA
Statistics
Matches: 111, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
138 3 0.03
139 108 0.97
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (139 bp):
TTGAAGACCATCCAATCTTTTACCATAACCAGAAGGCAGATTGAAGACAATCCAATCTGTTATCC
CGACCATCGAGCAGATTAAAGCAATCCAATCTTTTACCCTAACCAAAAGGCAGATTGAAGACCAT
CAGATCTTT
Found at i:800307 original size:79 final size:79
Alignment explanation
Indices: 800132--800398 Score: 268
Period size: 79 Copynumber: 3.3 Consensus size: 79
800122 CTTTTACTAT
* * * * *
800132 AACCAGAGGGCAGATTGAAGACCATCCAATCTGTTACCCTTACCATCGAGCAGATTAAAGCAATC
1 AACCAAAGGGCAGATTGAAGACCATCCAATCTCTTACCCTGACCATGGGGCAGATTAAAGCAATC
*
800197 CAATCTTTTACCCT
66 CAATCTTTTACCCC
* *
800211 AACCAAAAGGCAGATTGAAGACCATCCAATCTCTTACCCTGACCATGGGGCAAATTAAAGCAATC
1 AACCAAAGGGCAGATTGAAGACCATCCAATCTCTTACCCTGACCATGGGGCAGATTAAAGCAATC
800276 CAATCTTTTACCCC
66 CAATCTTTTACCCC
* * ** * * * * * * * *
800290 GATCATGGGGCAAATTGAAG-CAATCCAATCTTTTACCCTAGTCAAGAGGGGCAGATTGAAGACC
1 AACCAAAGGGCAGATTGAAGACCATCCAATCTCTTACCCT-GACCA-TGGGGCAGATTAAAG-CA
800354 ATCCAATCTTTTACCCC
63 ATCCAATCTTTTACCCC
**
800371 TAGTCAAGAGGGGCAGATTGAA-ACCATC
1 -AACCAA-A-GGGCAGATTGAAGACCATC
800399 TTCCTGATGA
Statistics
Matches: 153, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
78 17 0.11
79 88 0.58
80 12 0.08
81 18 0.12
82 3 0.02
84 15 0.10
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (79 bp):
AACCAAAGGGCAGATTGAAGACCATCCAATCTCTTACCCTGACCATGGGGCAGATTAAAGCAATC
CAATCTTTTACCCC
Found at i:801838 original size:30 final size:30
Alignment explanation
Indices: 801716--801845 Score: 127
Period size: 30 Copynumber: 4.3 Consensus size: 30
801706 TAAAATTACT
* * * ** *
801716 TTTGACCCTCAAACTATCCAAAAATTAGAT
1 TTTGACCCTTAAATTTTCCAAAAATTCCAA
* * * *
801746 TTTGGCCATTAATTTTTCCAAAAATTCTAA
1 TTTGACCCTTAAATTTTCCAAAAATTCCAA
**
801776 TTAAACCCTTAAATTTTCCAAAAATTCCAA
1 TTTGACCCTTAAATTTTCCAAAAATTCCAA
801806 TTTGACCCTTAAATTTTCC-AAAATATCCAA
1 TTTGACCCTTAAATTTTCCAAAAAT-TCCAA
*
801836 TTTGATCCTT
1 TTTGACCCTT
801846 GAATCTTATA
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
29 5 0.06
30 76 0.94
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTGACCCTTAAATTTTCCAAAAATTCCAA
Found at i:801885 original size:33 final size:32
Alignment explanation
Indices: 801848--801941 Score: 118
Period size: 33 Copynumber: 2.9 Consensus size: 32
801838 TGATCCTTGA
*
801848 ATCTTATATGTATATTATTTTATTATTTATTTT
1 ATCTTATATGTATATTATTTTATT-TTTATTGT
801881 ATCTTATATGTATATTATTTTA-TTTTATTGT
1 ATCTTATATGTATATTATTTTATTTTTATTGT
* * * *
801912 ATATTATGTATATATTGTTTTATTTATTAT
1 ATCTTATATGTATATTATTTTATTT-TTAT
801942 GTACACTTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
31 25 0.46
32 3 0.06
33 26 0.48
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (32 bp):
ATCTTATATGTATATTATTTTATTTTTATTGT
Found at i:801887 original size:17 final size:17
Alignment explanation
Indices: 801848--801918 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 17
801838 TGATCCTTGA
801848 ATCTTA-TATGTATATT
1 ATCTTATTATGTATATT
* * *
801864 ATTTTATTATTTATTTT
1 ATCTTATTATGTATATT
801881 ATCTTA-TATGTATATT
1 ATCTTATTATGTATATT
*
801897 ATTTTATTTTATTGTATATT
1 ATCTTA--TTA-TGTATATT
801917 AT
1 AT
801919 GTATATATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 18 0.42
17 13 0.30
19 2 0.05
20 10 0.23
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (17 bp):
ATCTTATTATGTATATT
Found at i:801903 original size:16 final size:16
Alignment explanation
Indices: 801851--801903 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
801841 TCCTTGAATC
801851 TTATATGTATATTATT
1 TTATATGTATATTATT
* * *
801867 TTATTATTTATTTTATC
1 TTA-TATGTATATTATT
801884 TTATATGTATATTATT
1 TTATATGTATATTATT
801900 TTAT
1 TTAT
801904 TTTATTGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (16 bp):
TTATATGTATATTATT
Found at i:801926 original size:31 final size:31
Alignment explanation
Indices: 801851--801936 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
801841 TCCTTGAATC
* * *
801851 TTATATGTATATTATTTTATTATTTATTTTATC
1 TTATATATATATTATTTTA-T-TTTATTGTATA
*
801884 TTATATGTATATTATTTTATTTTATTGTATA
1 TTATATATATATTATTTTATTTTATTGTATA
* *
801915 TTATGTATATATTGTTTTATTT
1 TTATATATATATTATTTTATTT
801937 ATTATGTACA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 28 0.58
32 1 0.02
33 19 0.40
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (31 bp):
TTATATATATATTATTTTATTTTATTGTATA
Found at i:803353 original size:5 final size:6
Alignment explanation
Indices: 803338--803362 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
803328 GCAGCTCTAA
803338 TTTTTG TTTTTG TTTTTG TTTTTG T
1 TTTTTG TTTTTG TTTTTG TTTTTG T
803363 CATAACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:807645 original size:12 final size:11
Alignment explanation
Indices: 807617--807652 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
807607 TCAATCACAT
807617 AAAAAG-AAAG
1 AAAAAGAAAAG
807627 AAAAAGAAAAG
1 AAAAAGAAAAG
807638 AGAAAAGAAAAG
1 A-AAAAGAAAAG
807650 AAA
1 AAA
807653 TATATTGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.25
11 7 0.29
12 11 0.46
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:816247 original size:17 final size:17
Alignment explanation
Indices: 816222--816258 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
816212 TTCAATAACG
*
816222 AATGGAAATACAATGAC
1 AATGCAAATACAATGAC
*
816239 AATGCAAATGCAATGAC
1 AATGCAAATACAATGAC
816256 AAT
1 AAT
816259 TAAATGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (17 bp):
AATGCAAATACAATGAC
Found at i:831418 original size:27 final size:27
Alignment explanation
Indices: 831388--831446 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
831378 TATTTAGAAT
* *
831388 ATTAGATTTATTTTCTGATTATTAAGA
1 ATTAGATTTAATTTCTAATTATTAAGA
*
831415 ATTAGATTTAATTTCTAATTATTAGGA
1 ATTAGATTTAATTTCTAATTATTAAGA
831442 ATTAG
1 ATTAG
831447 CTATTATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (27 bp):
ATTAGATTTAATTTCTAATTATTAAGA
Found at i:833661 original size:46 final size:47
Alignment explanation
Indices: 833609--833703 Score: 183
Period size: 46 Copynumber: 2.0 Consensus size: 47
833599 CTGTTAGAAG
833609 TTAGAACCCAGCCAAATAAGTTCGAGACTTTT-TCTTTTTCTTCTTT
1 TTAGAACCCAGCCAAATAAGTTCGAGACTTTTCTCTTTTTCTTCTTT
833655 TTAGAACCCAGCCAAATAAGTTCGAGACTTTTCTCTTTTTCTTCTTT
1 TTAGAACCCAGCCAAATAAGTTCGAGACTTTTCTCTTTTTCTTCTTT
833702 TT
1 TT
833704 TTTTTTTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 32 0.67
47 16 0.33
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (47 bp):
TTAGAACCCAGCCAAATAAGTTCGAGACTTTTCTCTTTTTCTTCTTT
Found at i:854511 original size:3 final size:3
Alignment explanation
Indices: 854496--854530 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
854486 CATGTTTGAA
*
854496 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
854531 AGGTGATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:854543 original size:9 final size:9
Alignment explanation
Indices: 854492--854541 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
854482 AACCCATGTT
854492 TGAAGATGA
1 TGAAGATGA
*
854501 TGACGATGA
1 TGAAGATGA
*
854510 TGATGATGA
1 TGAAGATGA
*
854519 TGATGATGA
1 TGAAGATGA
*
854528 TGAAGGTGA
1 TGAAGATGA
854537 TGAAG
1 TGAAG
854542 GTTTTTAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.26
Consensus pattern (9 bp):
TGAAGATGA
Found at i:855009 original size:21 final size:21
Alignment explanation
Indices: 854969--855009 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
854959 GGTAGAACTA
* *
854969 AGGTTCTATTGATACAACTCT
1 AGGTTCTATCGAGACAACTCT
*
854990 AGGTTCTATCGAGACCACTC
1 AGGTTCTATCGAGACAACTC
855010 AAACTTCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (21 bp):
AGGTTCTATCGAGACAACTCT
Found at i:855995 original size:21 final size:21
Alignment explanation
Indices: 855949--856007 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
855939 ATAGTGCAGA
* * *
855949 CTTCTACTGATACGAGTGATT
1 CTTCTACTGATACAAGTAACT
*
855970 GTTCTACTGATACAAGTAACT
1 CTTCTACTGATACAAGTAACT
* *
855991 CTTCTACCGAAACAAGT
1 CTTCTACTGATACAAGT
856008 CTTACTTCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (21 bp):
CTTCTACTGATACAAGTAACT
Found at i:856724 original size:19 final size:18
Alignment explanation
Indices: 856702--856741 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
856692 CTCTTGCGAT
*
856702 CCAATAAAGCTCTAACGAG
1 CCAAT-AAGCTCAAACGAG
*
856721 CCAATATGCTCAAACGAG
1 CCAATAAGCTCAAACGAG
856739 CCA
1 CCA
856742 GTATGCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.40, C:0.30, G:0.15, T:0.15
Consensus pattern (18 bp):
CCAATAAGCTCAAACGAG
Found at i:856736 original size:18 final size:18
Alignment explanation
Indices: 856710--856748 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
856700 ATCCAATAAA
*
856710 GCTCTAACGAGCCAATAT
1 GCTCAAACGAGCCAATAT
*
856728 GCTCAAACGAGCCAGTAT
1 GCTCAAACGAGCCAATAT
856746 GCT
1 GCT
856749 AATCCTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (18 bp):
GCTCAAACGAGCCAATAT
Found at i:862248 original size:3 final size:3
Alignment explanation
Indices: 862208--862269 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
862198 GAACAACTTA
* *
862208 TTC TTC TTT TTC TTT TTCC TTC -TC TTC -TC TTGC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TT-C TTC TTC TTC TTC
862253 -TC TT- TTC -TC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TT
862270 TAACACCCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
2 10 0.21
3 33 0.69
4 5 0.10
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:862251 original size:18 final size:16
Alignment explanation
Indices: 862208--862268 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 16
862198 GAACAACTTA
*
862208 TTCTTCTTTTTCT-TT
1 TTCTTCTTCTTCTCTT
862223 TTCCTTC-TCTTCTCTT
1 TT-CTTCTTCTTCTCTT
862239 GCTTCTTCTTCTTCTCTT
1 --TTCTTCTTCTTCTCTT
862257 TTC-TCTTCTTCT
1 TTCTTCTTCTTCT
862269 TTAACACCCT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 16 0.40
16 9 0.22
17 4 0.10
18 11 0.28
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (16 bp):
TTCTTCTTCTTCTCTT
Found at i:862269 original size:18 final size:18
Alignment explanation
Indices: 862209--862269 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
862199 AACAACTTAT
*
862209 TCTTCTTTTTCT-TTTTC
1 TCTTCTTCTTCTCTTTTC
*
862226 -CTTC-TCTTCTC-TTGC
1 TCTTCTTCTTCTCTTTTC
862241 TTCTTCTTCTTCTCTTTTC
1 -TCTTCTTCTTCTCTTTTC
862260 TCTTCTTCTT
1 TCTTCTTCTT
862270 TAACACCCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
15 8 0.22
16 4 0.11
17 4 0.11
18 17 0.47
19 3 0.08
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (18 bp):
TCTTCTTCTTCTCTTTTC
Found at i:867440 original size:120 final size:120
Alignment explanation
Indices: 867227--867466 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 120
867217 TCCCTAAGAA
*
867227 ATTTGACCTTCTGGTGACCTGTTGCACTCAATGGTAGCTTTCCATAGACTAGATAATTGACAACA
1 ATTTGACCTTCCGGTGACCTGTTGCACTCAATGGTAGCTTTCCATAGACTAGATAATTGACAACA
867292 TTTGCATGCCATGGAGATTCATCGACAAAGAATAACTTCTCATTTGGAAATGTGT
66 TTTGCATGCCATGGAGATTCATCGACAAAGAATAACTTCTCATTTGGAAATGTGT
867347 ATTTGACCTTCCGGTGACCTGTTGCACTCAATGGTAGCTTTCCATAGACTAGATAATTGACAACA
1 ATTTGACCTTCCGGTGACCTGTTGCACTCAATGGTAGCTTTCCATAGACTAGATAATTGACAACA
867412 TTTGCATGCCATGGAGATTCATCGACAAAGAATAACTTCTCATTTGGAAATGTGT
66 TTTGCATGCCATGGAGATTCATCGACAAAGAATAACTTCTCATTTGGAAATGTGT
867467 CGATAATTTG
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (120 bp):
ATTTGACCTTCCGGTGACCTGTTGCACTCAATGGTAGCTTTCCATAGACTAGATAATTGACAACA
TTTGCATGCCATGGAGATTCATCGACAAAGAATAACTTCTCATTTGGAAATGTGT
Found at i:867963 original size:29 final size:29
Alignment explanation
Indices: 867930--868009 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
867920 TAATTTTAAT
*
867930 AACCAATCTGGTGCGACGATAATGGGTGC
1 AACCAATCTGGTGCGACGACAATGGGTGC
867959 AACCAATCTGGTGCGACGACAATGGGTGC
1 AACCAATCTGGTGCGACGACAATGGGTGC
*
867988 GACGACAA--TGGTGCGACGACAA
1 AAC--CAATCTGGTGCGACGACAA
868010 CTATACTTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
29 44 0.94
31 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.31, T:0.16
Consensus pattern (29 bp):
AACCAATCTGGTGCGACGACAATGGGTGC
Found at i:867988 original size:15 final size:15
Alignment explanation
Indices: 867939--868009 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
867929 TAACCAATCT
*
867939 GGTGCGACGATAATG
1 GGTGCGACGACAATG
* *
867954 GGTGCAAC--CAATCT
1 GGTGCGACGACAAT-G
867968 GGTGCGACGACAATG
1 GGTGCGACGACAATG
867983 GGTGCGACGACAAT-
1 GGTGCGACGACAATG
867997 GGTGCGACGACAA
1 GGTGCGACGACAA
868010 CTATACTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
13 3 0.06
14 20 0.42
15 21 0.44
16 4 0.08
ACGTcount: A:0.28, C:0.21, G:0.35, T:0.15
Consensus pattern (15 bp):
GGTGCGACGACAATG
Found at i:868002 original size:14 final size:14
Alignment explanation
Indices: 867967--868009 Score: 77
Period size: 14 Copynumber: 3.0 Consensus size: 14
867957 GCAACCAATC
867967 TGGTGCGACGACAA
1 TGGTGCGACGACAA
867981 TGGGTGCGACGACAA
1 T-GGTGCGACGACAA
867996 TGGTGCGACGACAA
1 TGGTGCGACGACAA
868010 CTATACTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.50
15 14 0.50
ACGTcount: A:0.28, C:0.21, G:0.37, T:0.14
Consensus pattern (14 bp):
TGGTGCGACGACAA
Found at i:872136 original size:21 final size:21
Alignment explanation
Indices: 872107--872183 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
872097 AATAGTGCAG
*
872107 ACTTTTACCGATACAAGTGGC
1 ACTTCTACCGATACAAGTGGC
* *
872128 AGTTCTACCAATACAAGTGGC
1 ACTTCTACCGATACAAGTGGC
* * ***
872149 TCTTCTACCGAAACAAGTCTT
1 ACTTCTACCGATACAAGTGGC
872170 ACTTCTACCGATAC
1 ACTTCTACCGATAC
872184 TAAAAAATCC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGGC
Found at i:872911 original size:18 final size:18
Alignment explanation
Indices: 872862--872913 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
872852 ATTAACTCTT
*
872862 ACGATCCAATAATGCTCAA
1 ACGAGCCAAT-ATGCTCAA
* * * *
872881 ACAAGCTAGTATGCTTAA
1 ACGAGCCAATATGCTCAA
872899 ACGAGCCAATATGCT
1 ACGAGCCAATATGCT
872914 AATCCTTCCA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (18 bp):
ACGAGCCAATATGCTCAA
Found at i:877063 original size:15 final size:15
Alignment explanation
Indices: 877043--877072 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
877033 ATTAGATATA
877043 CTATTCATTCAACAT
1 CTATTCATTCAACAT
*
877058 CTATTCATTTAACAT
1 CTATTCATTCAACAT
877073 TCCACATTTC
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:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
CTATTCATTCAACAT
Found at i:877298 original size:19 final size:17
Alignment explanation
Indices: 877274--877309 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
877264 GTTGGATTTT
877274 ATTGTTTCCATTTGTATAA
1 ATTGTTT-CATTT-TATAA
877293 ATTGTTTCATTTTATAA
1 ATTGTTTCATTTTATAA
877310 CTTAGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (17 bp):
ATTGTTTCATTTTATAA
Found at i:883620 original size:13 final size:13
Alignment explanation
Indices: 883580--883635 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
883570 CTACAAATAC
* *
883580 TTCATATAAACAC
1 TTCATATAACCAT
883593 TTCATATAACCAT
1 TTCATATAACCAT
* *
883606 TTCATATATCTAT
1 TTCATATAACCAT
*
883619 TTCCATATAAACAT
1 TT-CATATAACCAT
883633 TTC
1 TTC
883636 GTGTTGTCGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
13 25 0.71
14 10 0.29
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:884256 original size:43 final size:43
Alignment explanation
Indices: 884197--884415 Score: 251
Period size: 43 Copynumber: 5.1 Consensus size: 43
884187 TTATGAGGGA
* *
884197 AAACGCCGCTATAGAACGTGGTCTTTAGCGGTGCTTTCCCCAC
1 AAACGCCGCTAAAGAACGTGGTCTTTAGCGGTGCTTTTCCCAC
* * * *
884240 AAACGTCGTTAAAGAACATAGTCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGAACGTGGTCTTTAGCGGTGCTTTTCCCAC
* * ** *
884283 AAATGCCGCTAAAGAACGTGGTCTTTAGTGACGCTTTTCTCAC
1 AAACGCCGCTAAAGAACGTGGTCTTTAGCGGTGCTTTTCCCAC
* * *
884326 AAATGCCACTAAAGAATGTGGTCTTTAGCGGCT-CTTTTCCCAC
1 AAACGCCGCTAAAGAACGTGGTCTTTAGCGG-TGCTTTTCCCAC
* * * * *
884369 AAACGCCGCTAAAAAATGTGGTTTTTAGTGATGCTTTTCCCAC
1 AAACGCCGCTAAAGAACGTGGTCTTTAGCGGTGCTTTTCCCAC
884412 AAAC
1 AAAC
884416 ATTGCTAATA
Statistics
Matches: 147, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 146 0.99
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACGTGGTCTTTAGCGGTGCTTTTCCCAC
Found at i:887872 original size:41 final size:41
Alignment explanation
Indices: 887804--887891 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
887794 GTGTTTTCTT
* * *
887804 ATAAACGCCGCTAATACTCTGACCTTTAACAGTGCTTTCCC
1 ATAAACGCCGATAATACTCTAACCTTTAACAGCGCTTTCCC
* * * * * *
887845 ATAAACGTCGATAATGCTCTAATCTTTACCGGCGCTTTCTC
1 ATAAACGCCGATAATACTCTAACCTTTAACAGCGCTTTCCC
887886 ATAAAC
1 ATAAAC
887892 ACCGCGAATG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (41 bp):
ATAAACGCCGATAATACTCTAACCTTTAACAGCGCTTTCCC
Found at i:888001 original size:17 final size:17
Alignment explanation
Indices: 887979--888024 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
887969 AATTTATTTT
887979 CAAATTTTATATATATC
1 CAAATTTTATATATATC
*
887996 CAAATTTGATATA-ATC
1 CAAATTTTATATATATC
888012 C---TTTTATATATAT
1 CAAATTTTATATATAT
888025 ATTTGCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 8 0.31
14 2 0.08
16 4 0.15
17 12 0.46
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (17 bp):
CAAATTTTATATATATC
Found at i:889929 original size:41 final size:41
Alignment explanation
Indices: 889883--890104 Score: 227
Period size: 41 Copynumber: 5.4 Consensus size: 41
889873 CTATTACTTA
889883 ACCTTTAACGGCGTTTTCCCATAAACGCCGCTAATGCTCTG
1 ACCTTTAACGGCGTTTTCCCATAAACGCCGCTAATGCTCTG
** * * *
889924 ACCTTTCGCGGCGCTTTCTCATAAACGCCACTAAAT-CTCTG
1 ACCTTTAACGGCGTTTTCCCATAAACGCCGCT-AATGCTCTG
* * *
889965 ACCTTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTG
1 ACCTTTAACGGCGTTTTCCCATAAACGCCGCTAATGCTCTG
** *
890006 ACCTTTAGA-GGC-ACTTCCTCATAAACGCCGCTAATGCTCTA
1 ACCTTTA-ACGGCGTTTTCC-CATAAACGCCGCTAATGCTCTG
* * * *
890047 ACCTTTAACGGCGTTTTTACTATAAACGCCGCTATTGCT-TT
1 ACCTTTAACGGCG-TTTTCCCATAAACGCCGCTAATGCTCTG
**
890088 ACCTTTTGCGGCGTTTT
1 ACCTTTAACGGCGTTTT
890105 TTTAATCCAA
Statistics
Matches: 154, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
40 11 0.07
41 120 0.78
42 20 0.13
43 3 0.02
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (41 bp):
ACCTTTAACGGCGTTTTCCCATAAACGCCGCTAATGCTCTG
Found at i:890027 original size:82 final size:81
Alignment explanation
Indices: 889881--890093 Score: 268
Period size: 82 Copynumber: 2.6 Consensus size: 81
889871 CGCTATTACT
* * * * *
889881 TAACCTTTAACGGCGTTTTCCCATAAACGCCGCTAATGCTCTGACCTTTCGCGGCGCTTTCTCAT
1 TAACCTTTAACGGCG-TTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGAGGCACTTCCTCAT
889946 AAACGCCACTAAAT-CTC
65 AAACGCCACT-AATGCTC
* *
889963 TGACCTTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGAGGCACTTCCTCAT
1 TAACCTTTAACGGCG-TTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGAGGCACTTCCTCAT
*
890028 AAACGCCGCTAATGCTC
65 AAACGCCACTAATGCTC
* * *
890045 TAACCTTTAACGGCGTTTTTACTATAAACGCCGCTATTGCT-TTACCTTT
1 TAACCTTTAACGGCGTTTCT-C-ATAAACGCCGCTAATGCTCTGACCTTT
890094 TGCGGCGTTT
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
81 7 0.06
82 90 0.79
83 17 0.15
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (81 bp):
TAACCTTTAACGGCGTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGAGGCACTTCCTCATA
AACGCCACTAATGCTC
Found at i:890838 original size:23 final size:22
Alignment explanation
Indices: 890812--890873 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
890802 TTGGATGACG
890812 TTTAAAACATATTTTAGACACCA
1 TTTAAAACATATTTT-GACACCA
* * * *
890835 TTTAAATCTTACTTTGACAGCA
1 TTTAAAACATATTTTGACACCA
*
890857 TTTGAAACATACTTTTG
1 TTTAAAACATA-TTTTG
890874 CTAGTATTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.40
Consensus pattern (22 bp):
TTTAAAACATATTTTGACACCA
Found at i:890869 original size:22 final size:22
Alignment explanation
Indices: 890816--890871 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
890806 ATGACGTTTA
*
890816 AAACATATTTTAGACACCATTT
1 AAACATACTTTAGACACCATTT
* *
890838 AAATCTTACTTT-GACAGCATTT
1 AAA-CATACTTTAGACACCATTT
890860 GAAACATACTTT
1 -AAACATACTTT
890872 TGCTAGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
AAACATACTTTAGACACCATTT
Found at i:891721 original size:29 final size:28
Alignment explanation
Indices: 891651--891723 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
891641 CAAATACAAT
*
891651 TAATAATACAATAAAGATATAATTATAG
1 TAATAATACAATAAAGATATAATCATAG
* *
891679 TATTAAATAAAATAACA-ATATAATCATAG
1 TAAT-AATACAATAA-AGATATAATCATAG
891708 TAATAATGACAATAAA
1 TAATAAT-ACAATAAA
891724 TATTAATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 7 0.19
29 29 0.78
30 1 0.03
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (28 bp):
TAATAATACAATAAAGATATAATCATAG
Found at i:891878 original size:19 final size:22
Alignment explanation
Indices: 891854--891893 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
891844 ATAACATACA
891854 AATAAAT-TA-GAAAT-CAATG
1 AATAAATATATGAAATACAATG
891873 AATAAATATATGAAATACAAT
1 AATAAATATATGAAATACAAT
891894 CATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 5 0.28
22 4 0.22
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (22 bp):
AATAAATATATGAAATACAATG
Found at i:893164 original size:48 final size:51
Alignment explanation
Indices: 893088--893198 Score: 156
Period size: 50 Copynumber: 2.2 Consensus size: 51
893078 TTTTTTTAGG
* *
893088 GGTGTAAGATTCGCCGTTGCGGCTTCAATCTATT-CC-TTTTTTTTCAAAA
1 GGTGTAAGATTCACCGTTACGGCTTCAATCTATTCCCTTTTTTTTTCAAAA
* * *
893137 GGTGTAAGATTCACCTTTAC-GCTTCAATTTGTTCCCTTTTTTTTTCAAAA
1 GGTGTAAGATTCACCGTTACGGCTTCAATCTATTCCCTTTTTTTTTCAAAA
893187 GGTGTAAGATTC
1 GGTGTAAGATTC
893199 GTTGTTGCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
48 11 0.20
49 19 0.35
50 25 0.45
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (51 bp):
GGTGTAAGATTCACCGTTACGGCTTCAATCTATTCCCTTTTTTTTTCAAAA
Found at i:893605 original size:98 final size:98
Alignment explanation
Indices: 893475--893877 Score: 445
Period size: 98 Copynumber: 4.1 Consensus size: 98
893465 CCCTTCTTTG
* * * * * *
893475 ATTTT-AGGTGTTAGATCCACCGTTACGACTTCAATCTATCCCTTTTCGGTTTTAAGGTGTTAGC
1 ATTTTAAGGTGTAAGATCCACCGTTACGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGA
* * *
893539 TCCACCGTTA-TAGCTTCAACCTCTCCCTCTTCA
66 TCCACCATTACGA-CTTCAACCTATCCCTCTTCA
* * * *
893572 ATTTTAAGGTGTAAGATCCATCGTTACGACTTCAATCCTTCCCTCTTC-AGTTTTAGGGTGCTCG
1 ATTTTAAGGTGTAAGATCCACCGTTACGACTTCAATCTTTCCCTCTTCGA-TTTTAGGGTGTTAG
* * * * *
893636 ATTCGCCGTTACGACTTTAACCTATCCCTCTTTA
65 ATCCACCATTACGACTTCAACCTATCCCTCTTCA
* * ** *
893670 GTTTTAAGGTGTAAGATCTATTGTTACGACTTTAATCTTTCCCTCTTCGATTTTAGGGTGTTAGA
1 ATTTTAAGGTGTAAGATCCACCGTTACGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGA
* *
893735 TCCATCATTACGACTTCAACCTATCCCTCTTTA
66 TCCACCATTACGACTTCAACCTATCCCTCTTCA
* * *
893768 GTTTTAAGGTGTAAGATCTACCGTTGC-AGCTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAG
1 ATTTTAAGGTGTAAGATCCACCGTTACGA-CTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAG
** * * * *
893832 ATCTGCCATTATGATTTCAATCTATCCCTCTTCG
65 ATCCACCATTACGACTTCAACCTATCCCTCTTCA
893866 ATTTTAAGGTGT
1 ATTTTAAGGTGT
893878 TAGGTTCGTC
Statistics
Matches: 260, Mismatches: 41, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
97 6 0.02
98 252 0.97
99 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.40
Consensus pattern (98 bp):
ATTTTAAGGTGTAAGATCCACCGTTACGACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGA
TCCACCATTACGACTTCAACCTATCCCTCTTCA
Found at i:893878 original size:49 final size:50
Alignment explanation
Indices: 893357--893880 Score: 344
Period size: 49 Copynumber: 10.7 Consensus size: 50
893347 ATTGTTGCAA
* * * * * *** *
893357 CTTCAATCTTTCCCTTTTCGATTTTAGGGTGCTAGGTCCGTTGTTACG-G
1 CTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCGTTACGAC
* * * * * ** * *
893406 TTTCAACCTATCCTTATTC-AGTTTTAAGGTGTAAGATCCGTCGTTGCG-G
1 CTTCAATCTATCCCTCTTCGA-TTTTAAGGTGTTAGATCCACCGTTACGAC
*
893455 CTTCAATCT-TCCCTTCTTTGATTTT-AGGTGTTAGATCCACCGTTACGA-
1 CTTCAATCTATCCC-TCTTCGATTTTAAGGTGTTAGATCCACCGTTACGAC
* * * * *
893503 CTTCAATCTATCCCTTTTCGGTTTTAAGGTGTTAGCTCCACCGTTA-TAG
1 CTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCGTTACGAC
* * * * *
893552 CTTCAACCTCTCCCTCTTCAATTTTAAGGTGTAAGATCCATCGTTACGA-
1 CTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCGTTACGAC
* * * * *
893601 CTTCAATCCT-TCCCTCTTC-AGTTTTAGGGTGCTCGATTCGCCGTTACGA-
1 CTTCAAT-CTATCCCTCTTCGA-TTTTAAGGTGTTAGATCCACCGTTACGAC
* * * * * **
893650 CTTTAACCTATCCCTCTT-TAGTTTTAAGGTGTAAGATCTATTGTTACGA-
1 CTTCAATCTATCCCTCTTCGA-TTTTAAGGTGTTAGATCCACCGTTACGAC
* * * * *
893699 CTTTAATCTTTCCCTCTTCGATTTTAGGGTGTTAGATCCATCATTACGA-
1 CTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCGTTACGAC
* * * * * *
893748 CTTCAACCTATCCCTCTT-TAGTTTTAAGGTGTAAGATCTACCGTTGC-AG
1 CTTCAATCTATCCCTCTTCGA-TTTTAAGGTGTTAGATCCACCGTTACGAC
* * ** * *
893797 CTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGATCTGCCATTATGA-
1 CTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCGTTACGAC
*
893846 TTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAG
1 CTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAG
893881 GTTCGTCGTT
Statistics
Matches: 375, Mismatches: 83, Indels: 34
0.76 0.17 0.07
Matches are distributed among these distances:
48 45 0.12
49 323 0.86
50 7 0.02
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.40
Consensus pattern (50 bp):
CTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCGTTACGAC
Found at i:893891 original size:98 final size:98
Alignment explanation
Indices: 893231--893900 Score: 347
Period size: 98 Copynumber: 6.8 Consensus size: 98
893221 CACTCTTTGG
* * ** * * * * * * *
893231 TTTTAGGGTGCTAGATTTGCCGTCGTGATTTCAGTTTATCCCTCTTTGGTTTTAGGGTGTTCGGT
1 TTTTAGGGTGTTAGATCTGCCGTTATGACTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGGT
* * *
893296 CCGTCGTTGCAGCTTC-ATCCTATCCCTCTTCAA
66 CCGTCGTTACAGCTTCAAT-CTTTCCCTCTTCGA
* ** * *** *** * * * *
893329 ATTTAAAGTGTAAGATCTATTGTTGCAACTTCAATCTTTCCCTTTTCGATTTTAGGGTGCTAGGT
1 TTTTAGGGTGTTAGATCTGCCGTTATGACTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGGT
* * * * * * *
893394 CCGTTGTTACGGTTTCAACCTATCCTTATTC-A
66 CCGTCGTTACAGCTTCAATCTTTCCCTCTTCGA
* * * * ** * *
893426 GTTTTAAGGTGTAAGATCCGTCGTTGCGGCTTCAATCT-TCCCTTCTTTGATTTT-AGGTGTTAG
1 -TTTTAGGGTGTTAGATCTGCCGTTATGACTTCAATCTATCCC-TCTTCGATTTTAAGGTGTTAG
* ** * * *
893489 ATCCACCGTTAC-GACTTCAATCTATCCCTTTTCGG
64 GTCCGTCGTTACAG-CTTCAATCTTTCCCTCTTCGA
* * ** * * * * *
893524 TTTTAAGGTGTTAGCTCCACCGTTAT-AGCTTCAACCTCTCCCTCTTCAATTTTAAGGTGTAAGA
1 TTTTAGGGTGTTAGATCTGCCGTTATGA-CTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGG
* *
893588 TCCATCGTTAC-GACTTCAATCCTTCCCTCTTC-A
65 TCCGTCGTTACAG-CTTCAATCTTTCCCTCTTCGA
* * * * * * *
893621 GTTTTAGGGTGCTCGAT-TCGCCGTTACGACTTTAACCTATCCCTCTT-TAGTTTTAAGGTGTAA
1 -TTTTAGGGTGTTAGATCT-GCCGTTATGACTTCAATCTATCCCTCTTCGA-TTTTAAGGTGTTA
* ** * *
893684 GATCTATTGTTAC-GACTTTAATCTTTCCCTCTTCGA
63 GGTCCGTCGTTACAG-CTTCAATCTTTCCCTCTTCGA
*** * * * * * *
893720 TTTTAGGGTGTTAGATCCATCATTACGACTTCAACCTATCCCTCTT-TAGTTTTAAGGTGTAAGA
1 TTTTAGGGTGTTAGATCTGCCGTTATGACTTCAATCTATCCCTCTTCGA-TTTTAAGGTGTTAGG
*** *
893784 TCTACCGTTGCAGCTTCAATCTTTCCCTCTTCGA
65 TCCGTCGTTACAGCTTCAATCTTTCCCTCTTCGA
* *
893818 TTTTAGGGTGTTAGATCTGCCATTATGATTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGGT
1 TTTTAGGGTGTTAGATCTGCCGTTATGACTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGGT
* * *
893883 TCGTCGTTGCAGGTTCAA
66 CCGTCGTTACAGCTTCAA
893901 CCTATCCATC
Statistics
Matches: 453, Mismatches: 103, Indels: 32
0.77 0.18 0.05
Matches are distributed among these distances:
96 1 0.00
97 73 0.16
98 374 0.83
99 5 0.01
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (98 bp):
TTTTAGGGTGTTAGATCTGCCGTTATGACTTCAATCTATCCCTCTTCGATTTTAAGGTGTTAGGT
CCGTCGTTACAGCTTCAATCTTTCCCTCTTCGA
Found at i:893900 original size:49 final size:48
Alignment explanation
Indices: 893267--893882 Score: 312
Period size: 49 Copynumber: 12.6 Consensus size: 48
893257 GATTTCAGTT
* * * * * *
893267 TATCCCTCTTTGGTTTTAGGGTGTTCGGTCCGTCGTTGCAGCTTC-ATCC
1 TATCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTAC-GCTTCAAT-C
* * * * * * * * *
893316 TATCCCTCTTCAAATTTAAAGTGTAAGATCTATTGTTGCAACTTCAATC
1 TATCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTAC-GCTTCAATC
* * * * * * * *
893365 TTTCCCTTTTCGATTTTAGGGTGCTAGGTCCGTTGTTACGGTTTCAACC
1 TATCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTAC-GCTTCAATC
* * * * * *
893414 TATCCTTATTC-AGTTTTAAGGTGTAAGATCCGTCGTTGCGGCTTCAATC
1 TATCCCTCTTCGA-TTTTAAGGTGTTAGGTCCATCGTTAC-GCTTCAATC
* * *
893463 T-TCCCTTCTTTGATTTT-AGGTGTTAGATCCACCGTTACGACTTCAATC
1 TATCCC-TCTTCGATTTTAAGGTGTTAGGTCCATCGTTACG-CTTCAATC
* * * * * *
893511 TATCCCTTTTCGGTTTTAAGGTGTTAGCTCCACCGTTATAGCTTCAACC
1 TATCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTA-CGCTTCAATC
* * * *
893560 TCTCCCTCTTCAATTTTAAGGTGTAAGATCCATCGTTACGACTTCAATCC
1 TATCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACG-CTTCAAT-C
* * * * * ** * *
893610 T-TCCCTCTTC-AGTTTTAGGGTGCTCGATTCGCCGTTACGACTTTAACC
1 TATCCCTCTTCGA-TTTTAAGGTGTTAGGTCCATCGTTACG-CTTCAATC
* * * * * *
893658 TATCCCTCTT-TAGTTTTAAGGTGTAAGATCTATTGTTACGACTTTAATC
1 TATCCCTCTTCGA-TTTTAAGGTGTTAGGTCCATCGTTACG-CTTCAATC
* * * * *
893707 TTTCCCTCTTCGATTTTAGGGTGTTAGATCCATCATTACGACTTCAACC
1 TATCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACG-CTTCAATC
* * * * * *
893756 TATCCCTCTT-TAGTTTTAAGGTGTAAGATCTACCGTTGCAGCTTCAATC
1 TATCCCTCTTCGA-TTTTAAGGTGTTAGGTCCATCGTTAC-GCTTCAATC
* * * *** * * *
893805 TTTCCCTCTTCGATTTTAGGGTGTTAGATCTGCCATTATGATTTCAATC
1 TATCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACG-CTTCAATC
893854 TATCCCTCTTCGATTTTAAGGTGTTAGGT
1 TATCCCTCTTCGATTTTAAGGTGTTAGGT
893883 TCGTCGTTGC
Statistics
Matches: 438, Mismatches: 111, Indels: 36
0.75 0.19 0.06
Matches are distributed among these distances:
47 1 0.00
48 44 0.10
49 384 0.88
50 9 0.02
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (48 bp):
TATCCCTCTTCGATTTTAAGGTGTTAGGTCCATCGTTACGCTTCAATC
Found at i:893900 original size:147 final size:146
Alignment explanation
Indices: 893202--893914 Score: 478
Period size: 147 Copynumber: 4.8 Consensus size: 146
893192 AAGATTCGTT
* * * * * * * ** * *
893202 GTTGCAACTTCAATATGTTCACTCTTTGGTTTTAGGGTGCTAGATTTGCCGTCGTGATTTCAGTT
1 GTTGCAGCTTCAATCT-TTCCCTCTTCGATTTTAGGGTGTTAGATCTGCCGTTATGATTTCAATC
* * * * * * **
893267 TATCCCTCTTTGGTTTTAGGGTGTTCGGTCCGTCGTTGCAGCTTCATCCTATCCCTCTTCAAATT
65 TATCCCTCTTCGATTTTAAGGTGTTAGATCCGTCGTTGC-GCTTCAACCTATCCCTCTTCAGTTT
* **
893332 TAAAGTGTAAGATCTATT
129 TAAGGTGTAAGATCTACC
* * * * * ** * * *
893350 GTTGCAACTTCAATCTTTCCCTTTTCGATTTTAGGGTGCTAGGTCCGTTGTTACGGTTTCAACCT
1 GTTGCAGCTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGATCTGCCGTTATGATTTCAATCT
* * * * *
893415 ATCCTTATTC-AGTTTTAAGGTGTAAGATCCGTCGTTGCGGCTTCAATCT-TCCCTTCTT-TGAT
66 ATCCCTCTTCGA-TTTTAAGGTGTTAGATCCGTCGTTGC-GCTTCAACCTATCCC-TCTTCAG-T
* *
893477 TTT-AGGTGTTAGATCCACC
127 TTTAAGGTGTAAGATCTACC
* * * * * * ** * *
893496 GTTAC-GACTTCAATCTATCCCTTTTCGGTTTTAAGGTGTTAGCTCCACCGTTAT-AGCTTCAAC
1 GTTGCAG-CTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGATCTGCCGTTATGA-TTTCAAT
* * * * *
893559 CTCTCCCTCTTCAATTTTAAGGTGTAAGATCCATCGTTACGACTTCAATCCT-TCCCTCTTCAGT
64 CTATCCCTCTTCGATTTTAAGGTGTTAGATCCGTCGTTGCG-CTTCAA-CCTATCCCTCTTCAGT
* * *
893623 TTTAGGGTGCT-CGAT-TCGCC
127 TTTAAGGTG-TAAGATCT-ACC
* * * * * * * *** *
893643 GTTAC-GACTTTAACCTATCCCTCTT-TAGTTTTAAGGTGTAAGATCTATTGTTACGACTTT-AA
1 GTTGCAG-CTTCAATCTTTCCCTCTTCGA-TTTTAGGGTGTTAGATCTGCCGTTATGA-TTTCAA
* * * * * *
893705 TCTTTCCCTCTTCGATTTTAGGGTGTTAGATCCATCATTACGACTTCAACCTATCCCTCTTTAGT
63 TCTATCCCTCTTCGATTTTAAGGTGTTAGATCCGTCGTTGCG-CTTCAACCTATCCCTCTTCAGT
893770 TTTAAGGTGTAAGATCTACC
127 TTTAAGGTGTAAGATCTACC
*
893790 GTTGCAGCTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGATCTGCCATTATGATTTCAATCT
1 GTTGCAGCTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGATCTGCCGTTATGATTTCAATCT
* * * *
893855 ATCCCTCTTCGATTTTAAGGTGTTAGGTTCGTCGTTGCAGGTTCAACCTATCCATCTTCA
66 ATCCCTCTTCGATTTTAAGGTGTTAGATCCGTCGTTGC-GCTTCAACCTATCCCTCTTCA
893915 ACTCTAGGAT
Statistics
Matches: 439, Mismatches: 105, Indels: 43
0.75 0.18 0.07
Matches are distributed among these distances:
145 1 0.00
146 117 0.27
147 298 0.68
148 23 0.05
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (146 bp):
GTTGCAGCTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGATCTGCCGTTATGATTTCAATCT
ATCCCTCTTCGATTTTAAGGTGTTAGATCCGTCGTTGCGCTTCAACCTATCCCTCTTCAGTTTTA
AGGTGTAAGATCTACC
Found at i:894986 original size:23 final size:23
Alignment explanation
Indices: 894960--895003 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
894950 TCTTTTTTTC
894960 TTCTCCTTT-TTTTCATTTTCTCT
1 TTCTCCTTTCTTTTC-TTTTCTCT
**
894983 TTCTGTTTTCTTTTCTTTTCT
1 TTCTCCTTTCTTTTCTTTTCT
895004 TTTTTTTGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (23 bp):
TTCTCCTTTCTTTTCTTTTCTCT
Found at i:895065 original size:47 final size:47
Alignment explanation
Indices: 895002--895091 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
894992 CTTTTCTTTT
**
895002 CTTTTTTTTGGCTAGTTTGAGCTTCCCTTTCAGGTTTTCAACTGGAA
1 CTTTTTTTTGGCTAGTTTGAGCCGCCCTTTCAGGTTTTCAACTGGAA
* *
895049 CTTTCTTTTT-GCTAGTTTGAGCCGCCTTTTCAGGTTTTGAACT
1 CTTT-TTTTTGGCTAGTTTGAGCCGCCCTTTCAGGTTTTCAACT
895092 CAAACCCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.48
Consensus pattern (47 bp):
CTTTTTTTTGGCTAGTTTGAGCCGCCCTTTCAGGTTTTCAACTGGAA
Found at i:895105 original size:47 final size:48
Alignment explanation
Indices: 895006--895105 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 48
894996 TCTTTTCTTT
** ** ** *
895006 TTTTTGGCTAGTTTGAGCTTCCCTTTCAGGTTTTCAACTGGAACTTTC
1 TTTTTGGCTAGTTTGAGCCGCCCTTTCAGGTTTTCAACTCAAACCCTA
* *
895054 TTTTT-GCTAGTTTGAGCCGCCTTTTCAGGTTTTGAACTCAAACCCTA
1 TTTTTGGCTAGTTTGAGCCGCCCTTTCAGGTTTTCAACTCAAACCCTA
895101 TTTTT
1 TTTTT
895106 TTAGGCGAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 38 0.88
48 5 0.12
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (48 bp):
TTTTTGGCTAGTTTGAGCCGCCCTTTCAGGTTTTCAACTCAAACCCTA
Found at i:901632 original size:26 final size:26
Alignment explanation
Indices: 901602--901653 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
901592 ACCACTAATA
901602 CAACATACATAAAATAAAATGCAAAG
1 CAACATACATAAAATAAAATGCAAAG
*
901628 CAACATATATAAAATAAAATGCAAAG
1 CAACATACATAAAATAAAATGCAAAG
901654 GATCACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.62, C:0.13, G:0.08, T:0.17
Consensus pattern (26 bp):
CAACATACATAAAATAAAATGCAAAG
Found at i:901668 original size:26 final size:26
Alignment explanation
Indices: 901610--901673 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
901600 TACAACATAC
* *
901610 ATAAAATAAAATGCAAAGCAACATAT
1 ATAAAATAAAATGCAAAGCAACACAA
* *
901636 ATAAAATAAAATGCAAAGGATCACAA
1 ATAAAATAAAATGCAAAGCAACACAA
* *
901662 ATTAAATTAAAT
1 ATAAAATAAAAT
901674 CGAATTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.61, C:0.09, G:0.08, T:0.22
Consensus pattern (26 bp):
ATAAAATAAAATGCAAAGCAACACAA
Found at i:902983 original size:15 final size:15
Alignment explanation
Indices: 902963--902993 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
902953 AAAATATATG
902963 ACAAAAAATAAATAA
1 ACAAAAAATAAATAA
*
902978 ACAAAAAATCAATAA
1 ACAAAAAATAAATAA
902993 A
1 A
902994 TTAAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (15 bp):
ACAAAAAATAAATAA
Found at i:904324 original size:3 final size:3
Alignment explanation
Indices: 904316--904347 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
904306 TTCTTTCCAC
904316 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
904348 CATTTATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:905935 original size:20 final size:20
Alignment explanation
Indices: 905910--905949 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
905900 CTTGGTTTAA
905910 TCTCCAAAGTTTCCTTACCC
1 TCTCCAAAGTTTCCTTACCC
905930 TCTCCAAAGTTTCCTTACCC
1 TCTCCAAAGTTTCCTTACCC
905950 ACCTTACCTT
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:0.20, C:0.40, G:0.05, T:0.35
Consensus pattern (20 bp):
TCTCCAAAGTTTCCTTACCC
Found at i:918299 original size:12 final size:13
Alignment explanation
Indices: 918282--918314 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
918272 GCAAATTGAG
918282 TTAGTTTTTA-TT
1 TTAGTTTTTAGTT
*
918294 TTAGTTCTTAGTT
1 TTAGTTTTTAGTT
918307 TTAGTTTT
1 TTAGTTTT
918315 CATGCATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.70
Consensus pattern (13 bp):
TTAGTTTTTAGTT
Found at i:919312 original size:32 final size:32
Alignment explanation
Indices: 919275--919341 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
919265 CATTTGATCA
919275 TCTTTAGTAATTTTAATTTAGTTATTGCATTC
1 TCTTTAGTAATTTTAATTTAGTTATTGCATTC
*
919307 TCTTTAGTATTTTTAATTTAGTTATTGCATTC
1 TCTTTAGTAATTTTAATTTAGTTATTGCATTC
919339 TCT
1 TCT
919342 AACTTAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.10, G:0.09, T:0.58
Consensus pattern (32 bp):
TCTTTAGTAATTTTAATTTAGTTATTGCATTC
Found at i:934038 original size:79 final size:79
Alignment explanation
Indices: 933907--934060 Score: 263
Period size: 79 Copynumber: 1.9 Consensus size: 79
933897 ATTGTTGGAA
*
933907 AAGCTTACTATTGCTTCCTCGATGGTTATTCTGGCTACAATCAGATAGCTATTGCACCAGAGAAT
1 AAGCTTACTATTGCTTCCTCGATGGTTATTCTGGCTACAATCAAATAGCTATTGCACCAGAGAAT
933972 CAAGCAAAAATGAC
66 CAAGCAAAAATGAC
** * *
933986 AAGCTTACTATTGCTTCCTCGATGGTTATTCTGGCTACAATCAAATAGCTATTGTGCTAGAGGAT
1 AAGCTTACTATTGCTTCCTCGATGGTTATTCTGGCTACAATCAAATAGCTATTGCACCAGAGAAT
934051 CAAGCAAAAA
66 CAAGCAAAAA
934061 CGACTTTTAC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (79 bp):
AAGCTTACTATTGCTTCCTCGATGGTTATTCTGGCTACAATCAAATAGCTATTGCACCAGAGAAT
CAAGCAAAAATGAC
Found at i:937076 original size:81 final size:81
Alignment explanation
Indices: 936927--937424 Score: 393
Period size: 81 Copynumber: 6.2 Consensus size: 81
936917 GATCGGATAA
* * * * * *
936927 CTTCAATCTGTCCCAAGGTTAGGGTAAGAGATT-GA--ATGTCTTCAATCTGCCTTATGGTTGGG
1 CTTCAATCTGCCCCATGGTCAAGGTAAGAGATTAGATGATGTCTTCAATCTGCCTCATGGTCGGG
*
936989 GTAAGAGATTAGATGG
66 GTAAGAGATTGGATGG
* * * * * * *
937005 CTTCAATCTGCCTCGTGGTCAAGGTAAGGGATTTGATGATATCTTCAATCTGCCCCATTGTCGGG
1 CTTCAATCTGCCCCATGGTCAAGGTAAGAGATTAGATGATGTCTTCAATCTGCCTCATGGTCGGG
*
937070 GCAAGAGATTGGATGG
66 GTAAGAGATTGGATGG
* * * * * * *
937086 CTTTAATCTACCCCATAGTCGAGGTAAGAGATTGGATGATGTCGTCAATTTGCCTCATGGTCGGG
1 CTTCAATCTGCCCCATGGTCAAGGTAAGAGATTAGATGATGTCTTCAATCTGCCTCATGGTCGGG
937151 GTAAGAGATTGGATGG
66 GTAAGAGATTGGATGG
* * *
937167 CTTCAATCTGCCCCATGGTCAGGGTAAGAGATTAGATGATGTCTTCAATTTGCCTCATGGTCAGG
1 CTTCAATCTGCCCCATGGTCAAGGTAAGAGATTAGATGATGTCTTCAATCTGCCTCATGGTCGGG
*
937232 GTAAGAGATTGAATGATGT
66 GTAAGAGATTG---GATGG
* * * * * * * * *
937251 CTTTAATATG-TCC-----CAA-GTAAGAGATT-G--GATGGCTTTAATTTTCCCCATGGTC-AG
1 CTTCAATCTGCCCCATGGTCAAGGTAAGAGATTAGATGATGTCTTCAATCTGCCTCATGGTCGGG
937305 GTAAGAGATTGGATGATG
66 GTAAGAGATTGGATG--G
* ** * * *
937323 TCTTCAATCTACCCCATGGTCGGGGCT-AGAGATT-G--GATGGCTTCAATCTGCCGCATGATCG
1 -CTTCAATCTGCCCCATGGTCAAGG-TAAGAGATTAGATGATGTCTTCAATCTGCCTCATGGTCG
*
937384 GGGTAAGAGATTGGATCATGT
64 GGGTAAGAGATTGG---ATGG
*
937405 CTTCAATCTGCCCAATGGTC
1 CTTCAATCTGCCCCATGGTC
937425 GGGGTAGGAG
Statistics
Matches: 337, Mismatches: 62, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
70 4 0.01
73 19 0.06
74 23 0.07
76 1 0.00
77 10 0.03
78 28 0.08
79 3 0.01
80 29 0.09
81 203 0.60
83 2 0.01
84 15 0.04
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (81 bp):
CTTCAATCTGCCCCATGGTCAAGGTAAGAGATTAGATGATGTCTTCAATCTGCCTCATGGTCGGG
GTAAGAGATTGGATGG
Found at i:937438 original size:42 final size:40
Alignment explanation
Indices: 936927--937441 Score: 343
Period size: 42 Copynumber: 12.9 Consensus size: 40
936917 GATCGGATAA
* **
936927 CTTCAATCTGTCCCAAGGTTAGGGTAAGAGATT-GA-ATGT
1 CTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATATGT
* * * *
936966 CTTCAATCTGCCTTATGGTTGGGGTAAGAGATT--AGATGG
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGATATGT
* ** * * *
937005 CTTCAATCTGCCTCGTGGTCAAGGTAAGGGATTTGATGATAT
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGAT-ATGT
* * *
937047 CTTCAATCTGCCCCATTGTCGGGGCAAGAGATTGG--ATGG
1 CTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATATGT
* * * *
937086 CTTTAATCTACCCCATAGTCGAGGTAAGAGATTGGATGATGT
1 CTTCAATCT-GCCCATGGTCGGGGTAAGAGATTGGAT-ATGT
* * *
937128 CGTCAATTTGCCTCATGGTCGGGGTAAGAGATTGG--ATGG
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGATATGT
* *
937167 CTTCAATCTGCCCCATGGTCAGGGTAAGAGATTAGATGATGT
1 CTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGAT-ATGT
* * *
937209 CTTCAATTTGCCTCATGGTCAGGGTAAGAGATTGAATGATGT
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGAT-ATGT
* * * *
937251 CTTTAATATGTCCCA-------AGTAAGAGATTGG--ATGG
1 CTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATATGT
* * * *
937283 CTTTAATTTTCCCCATGGTC-AGGTAAGAGATTGGATGATGT
1 CTTCAA-TCTGCCCATGGTCGGGGTAAGAGATTGGAT-ATGT
* *
937324 CTTCAATCTACCCCATGGTCGGGGCT-AGAGATTGG--ATGG
1 CTTCAATCT-GCCCATGGTCGGGG-TAAGAGATTGGATATGT
*
937363 CTTCAATCTGCCGCATGATCGGGGTAAGAGATTGGATCATGT
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGAT-ATGT
*
937405 CTTCAATCTGCCCAATGGTCGGGGTAGGAGATTGGAT
1 CTTCAATCTGCCC-ATGGTCGGGGTAAGAGATTGGAT
937442 TGCGTCTTTG
Statistics
Matches: 379, Mismatches: 61, Indels: 69
0.74 0.12 0.14
Matches are distributed among these distances:
32 13 0.03
33 2 0.01
35 11 0.03
38 18 0.05
39 150 0.40
40 4 0.01
41 24 0.06
42 152 0.40
43 5 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (40 bp):
CTTCAATCTGCCCATGGTCGGGGTAAGAGATTGGATATGT
Found at i:937449 original size:42 final size:40
Alignment explanation
Indices: 936927--937441 Score: 370
Period size: 39 Copynumber: 12.9 Consensus size: 40
936917 GATCGGATAA
* ** *
936927 CTTCAATCTGTCCCAAGGTTAGGGTAAGAGATT-GA-ATGT
1 CTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATGTGT
* * *
936966 CTTCAATCTGCCTTATGGTTGGGGTAAGAGATTAGATG-G-
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGATGTGT
* ** * * *
937005 CTTCAATCTGCCTCGTGGTCAAGGTAAGGGATTTGATGATAT
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGATG-TGT
* *
937047 CTTCAATCTGCCCCATTGTCGGGGCAAGAGATTGGATG-G-
1 CTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATGTGT
* * * *
937086 CTTTAATCTACCCCATAGTCGAGGTAAGAGATTGGATGATGT
1 CTTCAATCT-GCCCATGGTCGGGGTAAGAGATTGGATG-TGT
* *
937128 CGTCAATTTGCCTCATGGTCGGGGTAAGAGATTGGATG-G-
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGATGTGT
* *
937167 CTTCAATCTGCCCCATGGTCAGGGTAAGAGATTAGATGATGT
1 CTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATG-TGT
* * *
937209 CTTCAATTTGCCTCATGGTCAGGGTAAGAGATTGAATGATGT
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGATG-TGT
* * *
937251 CTTTAATATGTCCCA-------AGTAAGAGATTGGATG-G-
1 CTTCAATCTG-CCCATGGTCGGGGTAAGAGATTGGATGTGT
* * * *
937283 CTTTAATTTTCCCCATGGTC-AGGTAAGAGATTGGATGATGT
1 CTTCAA-TCTGCCCATGGTCGGGGTAAGAGATTGGATG-TGT
*
937324 CTTCAATCTACCCCATGGTCGGGGCT-AGAGATTGGATG-G-
1 CTTCAATCT-GCCCATGGTCGGGG-TAAGAGATTGGATGTGT
* *
937363 CTTCAATCTGCCGCATGATCGGGGTAAGAGATTGGATCATGT
1 CTTCAATCTGCC-CATGGTCGGGGTAAGAGATTGGAT-GTGT
*
937405 CTTCAATCTGCCCAATGGTCGGGGTAGGAGATTGGAT
1 CTTCAATCTGCCC-ATGGTCGGGGTAAGAGATTGGAT
937442 TGCGTCTTTG
Statistics
Matches: 386, Mismatches: 53, Indels: 71
0.76 0.10 0.14
Matches are distributed among these distances:
32 10 0.03
33 3 0.01
35 14 0.04
38 20 0.05
39 151 0.39
40 10 0.03
41 23 0.06
42 150 0.39
43 5 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (40 bp):
CTTCAATCTGCCCATGGTCGGGGTAAGAGATTGGATGTGT
Done.