Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007841.1 Hibiscus syriacus cultivar Beakdansim tig00110195_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1873963
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:873692 original size:31 final size:30
Alignment explanation
Indices: 873597--873754 Score: 94
Period size: 31 Copynumber: 5.2 Consensus size: 30
873587 AGTTTTAAAT
* *
873597 ATTCTAATTTCATTCCTAAATTATGACTCTC
1 ATTCTAATTTCATCCCTAAACTATGAC-CTC
* * * * *
873628 ATTCTAAATT-AGCCCTTAAGCATTTGA--AC
1 ATTCTAATTTCATCCC-TAAAC-TATGACCTC
873657 ATTCTAATTTCATCCCTAAACTATGACCCTC
1 ATTCTAATTTCATCCCTAAACTATGA-CCTC
* * * *
873688 ATTCTAAATT-AGTCCTTAAACATTTGA--AC
1 ATTCTAATTTCA-TCCCTAAAC-TATGACCTC
*
873717 ATCCTAATTTCATCCCTAAACTATGACCCTC
1 ATTCTAATTTCATCCCTAAACTATGA-CCTC
*
873748 TTTCTAA
1 ATTCTAA
873755 GTTAGTCCCC
Statistics
Matches: 92, Mismatches: 23, Indels: 24
0.66 0.17 0.17
Matches are distributed among these distances:
28 8 0.09
29 31 0.34
30 9 0.10
31 36 0.39
32 8 0.09
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
ATTCTAATTTCATCCCTAAACTATGACCTC
Found at i:873736 original size:29 final size:29
Alignment explanation
Indices: 873648--873737 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 29
873638 AGCCCTTAAG
873648 CATTTGAACATTCTAATTTCATCCCTAAA
1 CATTTGAACATTCTAATTTCATCCCTAAA
* * * *
873677 C-TATGACCCTCATTCTAAATT-AGTCCTTAAA
1 CATTTGA---ACATTCTAATTTCA-TCCCTAAA
*
873708 CATTTGAACATCCTAATTTCATCCCTAAA
1 CATTTGAACATTCTAATTTCATCCCTAAA
873737 C
1 C
873738 TATGACCCTC
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
28 4 0.09
29 18 0.39
30 2 0.04
31 18 0.39
32 4 0.09
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (29 bp):
CATTTGAACATTCTAATTTCATCCCTAAA
Found at i:874030 original size:60 final size:60
Alignment explanation
Indices: 873924--874088 Score: 154
Period size: 60 Copynumber: 2.7 Consensus size: 60
873914 ATATATTTTG
* * * ** * *
873924 GGATGAAATTGGAATGTTCAAAAAGTATGGGGACCAATTTAAAATGA-AGGTTATAGTTTGA-
1 GGATAAAATTGAAATGTTC-AAAAGTTTAAGGACCAATTTAAAATGATA-GTCATAGCTT-AT
* * *
873985 GGTTAAAATTGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATGATAGTCATAGCTTAT
1 GGATAAAATTGAAATGTTCAAAAGTTTAAGGACCAATTTAAAATGATAGTCATAGCTTAT
* * * * *
874045 GGATAAAATTGAAATATTTAAAAGTTTAGGGATCAATTTTAAAT
1 GGATAAAATTGAAATGTTCAAAAGTTTAAGGACCAATTTAAAAT
874089 AAGATCATTT
Statistics
Matches: 84, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
59 1 0.01
60 66 0.79
61 17 0.20
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (60 bp):
GGATAAAATTGAAATGTTCAAAAGTTTAAGGACCAATTTAAAATGATAGTCATAGCTTAT
Found at i:874282 original size:14 final size:13
Alignment explanation
Indices: 874263--874310 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 13
874253 TATATTTATA
874263 AAAATATATTAATT
1 AAAATATA-TAATT
*
874277 ATAATATA-AATT
1 AAAATATATAATT
874289 AAAATATATGAAATT
1 AAAATATAT--AATT
874304 AAAATAT
1 AAAATAT
874311 TTTTTGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 11 0.38
14 7 0.24
15 11 0.38
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
AAAATATATAATT
Found at i:874283 original size:26 final size:27
Alignment explanation
Indices: 874254--874312 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
874244 GTATATATCT
* *
874254 ATATTTATAAAAATATAT-TAATTATA
1 ATATTTATAAAAATATATGAAATTAAA
** *
874280 ATATAAATTAAAATATATGAAATTAAA
1 ATATTTATAAAAATATATGAAATTAAA
874307 ATATTT
1 ATATTT
874313 TTTGATGTGT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
ATATTTATAAAAATATATGAAATTAAA
Found at i:874304 original size:15 final size:14
Alignment explanation
Indices: 874263--874310 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
874253 TATATTTATA
*
874263 AAAATATATTAATT
1 AAAATATATAAATT
*
874277 -ATA-ATATAAATT
1 AAAATATATAAATT
874289 AAAATATATGAAATT
1 AAAATATAT-AAATT
874304 AAAATAT
1 AAAATAT
874311 TTTTTGATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 8 0.29
13 4 0.14
14 4 0.14
15 12 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AAAATATATAAATT
Found at i:876766 original size:25 final size:24
Alignment explanation
Indices: 876720--876770 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
876710 TGAAACGTTG
876720 AAGGCTAAAATAATTCAAAATAATA
1 AAGGCTAAAATAATTCAAAAT-ATA
* *
876745 AAGGACTAAAATGATT-ACAATATA
1 AAGG-CTAAAATAATTCAAAATATA
876769 AA
1 AA
876771 ATTTAAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 8 0.35
26 10 0.43
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.24
Consensus pattern (24 bp):
AAGGCTAAAATAATTCAAAATATA
Found at i:877597 original size:26 final size:26
Alignment explanation
Indices: 877547--877597 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
877537 TGATTAATAG
*
877547 TATAAAATTTTAGAGTAGAGTAAATT
1 TATAAAATTTTAGAGTAGAGAAAATT
*
877573 TATAAATTTTTAGAGTA-ATGAAAAT
1 TATAAAATTTTAGAGTAGA-GAAAAT
877598 AAATTATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (26 bp):
TATAAAATTTTAGAGTAGAGAAAATT
Found at i:881371 original size:20 final size:20
Alignment explanation
Indices: 881338--881378 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
881328 ACGAACGAAT
*
881338 GTAAACGAACATAAATAAAC
1 GTAAACGAACATAAACAAAC
**
881358 GTAAACGATTATAAACAAAC
1 GTAAACGAACATAAACAAAC
881378 G
1 G
881379 AATATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.17
Consensus pattern (20 bp):
GTAAACGAACATAAACAAAC
Found at i:881489 original size:21 final size:22
Alignment explanation
Indices: 881438--881489 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
881428 TAATTTTAGG
881438 GTTT-ATATTTTCTTTAATTGA
1 GTTTAATATTTTCTTTAATTGA
* *
881459 -TTTGAGTATTTT-TTTATTTGA
1 GTTT-AATATTTTCTTTAATTGA
881480 GTTTAATATT
1 GTTTAATATT
881490 AATTGGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 3 0.12
21 13 0.52
22 9 0.36
ACGTcount: A:0.23, C:0.02, G:0.12, T:0.63
Consensus pattern (22 bp):
GTTTAATATTTTCTTTAATTGA
Found at i:885683 original size:35 final size:35
Alignment explanation
Indices: 885644--885730 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
885634 TTATATTATG
* *
885644 AACCCCAAATTCTAAAATATTTCAATTACATTCTA
1 AACCCCAAATTCTAAAATACTTCAATTACATACTA
*
885679 AACCCCAAATTCTAAAATACTTCAATTACATACTC
1 AACCCCAAATTCTAAAATACTTCAATTACATACTA
885714 AACCCCAAATTC-AAAAT
1 AACCCCAAATTCTAAAAT
885731 CCATTCTCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 5 0.10
35 44 0.90
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (35 bp):
AACCCCAAATTCTAAAATACTTCAATTACATACTA
Found at i:887768 original size:2 final size:2
Alignment explanation
Indices: 887761--887789 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
887751 AATTCTTTTA
887761 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
887790 TGCCTAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:893066 original size:3 final size:3
Alignment explanation
Indices: 893058--893092 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
893048 AAAATCTTCA
893058 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
893093 CAACAACTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:895365 original size:15 final size:14
Alignment explanation
Indices: 895345--895376 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
895335 TGTACTTATT
895345 TTTAATATTTTAATC
1 TTTAATATTTTAA-C
895360 TTTAATATTTTAAC
1 TTTAATATTTTAAC
895374 TTT
1 TTT
895377 TGATTAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAATATTTTAAC
Found at i:909867 original size:14 final size:14
Alignment explanation
Indices: 909844--909877 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
909834 GTGTTTTATT
* *
909844 AATATAAAATTTAG
1 AATATTAAATTTAA
909858 AATATTAAATTTAA
1 AATATTAAATTTAA
909872 AATATT
1 AATATT
909878 TTTATATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
AATATTAAATTTAA
Found at i:911968 original size:75 final size:74
Alignment explanation
Indices: 911815--911968 Score: 229
Period size: 75 Copynumber: 2.1 Consensus size: 74
911805 TTAACTCGTT
*
911815 CAATTCTCCCATTATCATTATCATTTTTTTGGTCACGTATCTCTTTTAGGATGTGCAAATGCCTT
1 CAATTCTCCCATTATCATTATCATTTTTTTGGTCACGTATCTCTTTTAGGATGTGCAAATGCCTG
* * *
911880 TAACTCGTT
66 AAACTAGTA
*
911889 CAATTCTCCCATTATCATTATCATTTTTTTTGGTCACGTATCTCTTTTAGGATGTGCAAAT-TCT
1 CAATTCTCCCATTATCATTATCA-TTTTTTTGGTCACGTATCTCTTTTAGGATGTGCAAATGCCT
*
911953 GAAAGTAGTAA
65 GAAACTAGT-A
911964 CAATT
1 CAATT
911969 ATAATCTTAC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
74 30 0.42
75 42 0.58
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (74 bp):
CAATTCTCCCATTATCATTATCATTTTTTTGGTCACGTATCTCTTTTAGGATGTGCAAATGCCTG
AAACTAGTA
Found at i:916411 original size:14 final size:14
Alignment explanation
Indices: 916392--916419 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
916382 AGTTCAATTA
916392 GAATTACGGAAAAC
1 GAATTACGGAAAAC
916406 GAATTACGGAAAAC
1 GAATTACGGAAAAC
916420 CAGTGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (14 bp):
GAATTACGGAAAAC
Found at i:916534 original size:42 final size:42
Alignment explanation
Indices: 916422--916536 Score: 212
Period size: 42 Copynumber: 2.7 Consensus size: 42
916412 CGGAAAACCA
* *
916422 GTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
916464 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
916506 GTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAA
916537 TGTAATTCAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.44
Consensus pattern (42 bp):
GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
Found at i:916749 original size:21 final size:21
Alignment explanation
Indices: 916707--916772 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
916697 CATTTTCATC
*
916707 AAAATATTAATTATTAAATATTT
1 AAAATA-TATTTATT-AATATTT
916730 AAAATATATTTATTAATATTT
1 AAAATATATTTATTAATATTT
*
916751 ATAATAATATTATATT-ATATTT
1 AAAAT-ATATT-TATTAATATTT
916773 TTAATATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.28
22 18 0.46
23 10 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAAATATATTTATTAATATTT
Found at i:916750 original size:10 final size:10
Alignment explanation
Indices: 916735--916780 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
916725 TATTTAAAAT
916735 ATATTTATTA
1 ATATTTATTA
916745 ATATTTATAATA
1 ATATTTAT--TA
916757 ATATTATATT-
1 ATATT-TATTA
916767 ATATTT-TTA
1 ATATTTATTA
916776 ATATT
1 ATATT
916781 ATATAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 6 0.19
10 13 0.41
11 1 0.03
12 7 0.22
13 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTATTA
Found at i:916777 original size:22 final size:22
Alignment explanation
Indices: 916717--916778 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
916707 AAAATATTAA
*
916717 TTATTAAATATTTAAAAT-ATAT
1 TTATT-AATATTTATAATAATAT
916739 TTATTAATATTTATAATAATAT
1 TTATTAATATTTATAATAATAT
*
916761 TATATT-ATATTTTTAATA
1 T-TATTAATATTTATAATA
916779 TTATATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.31
22 21 0.58
23 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATTAATATTTATAATAATAT
Found at i:916798 original size:30 final size:32
Alignment explanation
Indices: 916734--916811 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 32
916724 ATATTTAAAA
*
916734 TATATTTATTAATATTTATAATAATATTATAT
1 TATATTTATTAATATTTATAATAATATCATAT
916766 TATATTT-TTAATA-TTAT-ATAAATAATCA-AT
1 TATATTTATTAATATTTATAAT-AAT-ATCATAT
*
916796 TATATTATAATAATAT
1 TATATT-TATTAATAT
916812 AAGATATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
29 2 0.05
30 15 0.38
31 10 0.26
32 12 0.31
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAATATCATAT
Found at i:916810 original size:32 final size:28
Alignment explanation
Indices: 916734--916811 Score: 77
Period size: 35 Copynumber: 2.6 Consensus size: 28
916724 ATATTTAAAA
916734 TATATT-TATTAATATTTATAATAATAT
1 TATATTATATTAATATTTATAATAATAT
916761 TATATTATATTTTTAATATTATATAAATAATCAAT
1 TATATTATA---TTAATATT-TAT-AATAAT--AT
*
916796 TATATTATAATAATAT
1 TATATTATATTAATAT
916812 AAGATATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
27 6 0.14
28 2 0.05
31 8 0.19
32 9 0.21
33 6 0.14
35 11 0.26
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATTATATTAATATTTATAATAATAT
Found at i:916827 original size:29 final size:28
Alignment explanation
Indices: 916795--916895 Score: 84
Period size: 28 Copynumber: 3.6 Consensus size: 28
916785 AAATAATCAA
* *
916795 TTATATTATAATAATATA-AGATATTTATT
1 TTATATT-TAATAATATATAAAAATTT-TT
916824 TTAT-TTTAATAATATATAAAAATTTTT
1 TTATATTTAATAATATATAAAAATTTTT
* *
916851 TATATATTTAATAATGA-AT-AATATTATT
1 T-TATATTTAATAAT-ATATAAAAATTTTT
*
916879 ATATATTTCAATAATAT
1 TTATATTT-AATAATAT
916896 TTTAGTAAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
27 21 0.34
28 24 0.39
29 15 0.25
30 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (28 bp):
TTATATTTAATAATATATAAAAATTTTT
Found at i:917116 original size:19 final size:20
Alignment explanation
Indices: 917092--917140 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
917082 TTTTCAGATG
*
917092 TTTTCCATAAATGTAATTC-
1 TTTTCCAGAAATGTAATTCA
917111 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
917131 TTTTCCAGAA
1 TTTTCCAGAA
917141 TTCAAATTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:917148 original size:20 final size:19
Alignment explanation
Indices: 917092--917149 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
917082 TTTTCAGATG
* **
917092 TTTTCCATAAATGTAATTC
1 TTTTCCAGAAATCAAATTC
**
917111 TTTTCCAGAAATGTAATTC
1 TTTTCCAGAAATCAAATTC
*
917130 ATTTTCCAGAATTCAAATTC
1 -TTTTCCAGAAATCAAATTC
917150 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (19 bp):
TTTTCCAGAAATCAAATTC
Found at i:917159 original size:15 final size:15
Alignment explanation
Indices: 917123--917203 Score: 94
Period size: 15 Copynumber: 5.5 Consensus size: 15
917113 TTCCAGAAAT
**
917123 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
917138 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
* *
917152 GTAATTC-ATTTTCA
1 GTAATTCAAATTCCA
917166 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
*
917181 GTAATTCAAACTCCA
1 GTAATTCAAATTCCA
*
917196 ATAATTCA
1 GTAATTCA
917204 TTTTCCGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
14 24 0.43
15 32 0.57
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:917171 original size:29 final size:29
Alignment explanation
Indices: 917123--917188 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
917113 TTCCAGAAAT
917123 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
917152 GTAATTCATTTT-CAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAG-AATTCAAATTCCA
917181 GTAATTCA
1 GTAATTCA
917189 AACTCCAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 3 0.08
29 33 0.92
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:917202 original size:44 final size:43
Alignment explanation
Indices: 917123--917208 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 43
917113 TTCCAGAAAT
** * *
917123 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCA
1 GTAATTCAAATTCCAGAATTCAAACTCCAATAATTCATTTTCA
917166 GTAATTCAAATTCCAGTAATTCAAACTCCAATAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAACTCCAATAATTCATTTTC
917209 CGAAAAACCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 14 0.37
44 24 0.63
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.40
Consensus pattern (43 bp):
GTAATTCAAATTCCAGAATTCAAACTCCAATAATTCATTTTCA
Found at i:917682 original size:42 final size:42
Alignment explanation
Indices: 917623--917737 Score: 221
Period size: 42 Copynumber: 2.7 Consensus size: 42
917613 CCGAATTTCA
*
917623 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
917665 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
917707 GTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAA
917738 TATAATTCAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (42 bp):
GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
Found at i:917953 original size:10 final size:10
Alignment explanation
Indices: 917938--917983 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
917928 TATTTAAAAT
917938 ATATTTATTA
1 ATATTTATTA
917948 ATATTTATAATA
1 ATATTTAT--TA
917960 ATATTATATT-
1 ATATT-TATTA
917970 ATATTT-TTA
1 ATATTTATTA
917979 ATATT
1 ATATT
917984 ATATAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 6 0.19
10 13 0.41
11 1 0.03
12 7 0.22
13 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTATTA
Found at i:917971 original size:26 final size:25
Alignment explanation
Indices: 917909--917971 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 25
917899 CATTTTCATC
917909 AAAATATTA-ATTATTAAAATATTT
1 AAAATATTATATTATTAAAATATTT
*
917933 AAAATA-TAT-TTATTAATAT-TTAT
1 AAAATATTATATTATTAAAATATT-T
917956 AATAATATTATATTAT
1 AA-AATATTATATTAT
917972 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 14 0.42
24 10 0.30
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAATATTATATTATTAAAATATTT
Found at i:917973 original size:22 final size:23
Alignment explanation
Indices: 917926--917987 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 23
917916 TAATTATTAA
*
917926 AATATTTAAAAT-ATATT-TATT
1 AATATTTATAATAATATTATATT
917947 AATATTTATAATAATATTATATT
1 AATATTTATAATAATATTATATT
917970 -ATATTT-T--TAATATTATAT
1 AATATTTATAATAATATTATAT
917988 AAAATAATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 11 0.29
21 12 0.32
22 11 0.29
23 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATATTTATAATAATATTATATT
Found at i:918055 original size:30 final size:31
Alignment explanation
Indices: 918006--918101 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 31
917996 CAATTATATT
* * *
918006 ATAATAATATAAGATATTTTATTTTAT-TTTA
1 ATAATAATATAATAAATTTT-TTATATATTTA
918037 ATAAT-ATATAATAAATTTTTTATATATTTA
1 ATAATAATATAATAAATTTTTTATATATTTA
* *
918067 ATAATGA-ATAAT--ATTATTTATATATTTCA
1 ATAATAATATAATAAATTTTTTATATATTT-A
918096 ATAATA
1 ATAATA
918102 TTTTAGTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
28 14 0.25
29 11 0.19
30 26 0.46
31 6 0.11
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (31 bp):
ATAATAATATAATAAATTTTTTATATATTTA
Found at i:918358 original size:20 final size:20
Alignment explanation
Indices: 918300--918349 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
918290 TTTTCAAATG
918300 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
918320 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
918340 TTTTCCAGAA
1 TTTTCCAGAA
918350 TTCAAATTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:918368 original size:15 final size:15
Alignment explanation
Indices: 918332--918414 Score: 114
Period size: 15 Copynumber: 5.6 Consensus size: 15
918322 TTCCAGAAAT
**
918332 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
918347 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
918361 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
918376 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
*
918391 GTAATTCAAACTCCA
1 GTAATTCAAATTCCA
918406 GTAATTCAA
1 GTAATTCAA
918415 CTCTAAATCT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:918384 original size:30 final size:30
Alignment explanation
Indices: 918332--918414 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
918322 TTCCAGAAAT
918332 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
918361 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
***
918391 GTAATTCAAACTCCAGTAATTCAA
1 GTAATTCATTTTCCAGTAATTCAA
918415 CTCTAAATCT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:923957 original size:2 final size:2
Alignment explanation
Indices: 923900--923938 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
923890 TCAAAGTTTC
923900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
923939 CACACACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:932319 original size:154 final size:154
Alignment explanation
Indices: 932142--932449 Score: 616
Period size: 154 Copynumber: 2.0 Consensus size: 154
932132 AGAAAAAGTG
932142 CATGTCTGGATGAGTGCGCATCACATCTCGGTCAATCTGTTCTACGATTTCTGACTCCTACAAAT
1 CATGTCTGGATGAGTGCGCATCACATCTCGGTCAATCTGTTCTACGATTTCTGACTCCTACAAAT
932207 AACCCCGTCCCCAAAATAAAAAAATAAAGAATAAAGGTTTGATATCCATAAGCACTCCATTCATA
66 AACCCCGTCCCCAAAATAAAAAAATAAAGAATAAAGGTTTGATATCCATAAGCACTCCATTCATA
932272 GATTCTATTAAAATCTGAAAATCA
131 GATTCTATTAAAATCTGAAAATCA
932296 CATGTCTGGATGAGTGCGCATCACATCTCGGTCAATCTGTTCTACGATTTCTGACTCCTACAAAT
1 CATGTCTGGATGAGTGCGCATCACATCTCGGTCAATCTGTTCTACGATTTCTGACTCCTACAAAT
932361 AACCCCGTCCCCAAAATAAAAAAATAAAGAATAAAGGTTTGATATCCATAAGCACTCCATTCATA
66 AACCCCGTCCCCAAAATAAAAAAATAAAGAATAAAGGTTTGATATCCATAAGCACTCCATTCATA
932426 GATTCTATTAAAATCTGAAAATCA
131 GATTCTATTAAAATCTGAAAATCA
932450 GAATTCCCTT
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (154 bp):
CATGTCTGGATGAGTGCGCATCACATCTCGGTCAATCTGTTCTACGATTTCTGACTCCTACAAAT
AACCCCGTCCCCAAAATAAAAAAATAAAGAATAAAGGTTTGATATCCATAAGCACTCCATTCATA
GATTCTATTAAAATCTGAAAATCA
Found at i:936131 original size:198 final size:198
Alignment explanation
Indices: 935698--936358 Score: 855
Period size: 198 Copynumber: 3.3 Consensus size: 198
935688 GACCCAGAAC
* * *
935698 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATATCAGTT
1 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTT
* * * *
935763 TATATGATAGAATAGGTCAACATAATATATTAACACAAATTTAAAAAGCGTCGATACATTTTGTC
66 T-TATGATAGAATATGTCAACATAATGTATTGACACAAATTTAAAAAGCGTCGATAC-TTTTTTC
* * * *
935828 CAAAATGAATGCCAAACGAGGTGCACACATAAAGTGTTGATGCATTTATTAAA-AGTATCGATCC
129 CAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTA--AAATTGTATCGATCC
* *
935892 AAAAAAC
192 CAAAAAT
* *
935899 ATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGT-ACCTGGTAGAAATATACCGGT
1 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACC-GGTATAAATATACCGGT
* * * ** ***
935963 TTTATGAGAAAATATGTCTACATAATGTATTGACAC-GTTTTAAGTTTGCGTCGATACTTTTTTC
65 TTTATGATAGAATATGTCAACATAATGTATTGACACAAATTTAA-AAAGCGTCGATACTTTTTTC
* *
936027 CAGAATGAATGCCTAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCA
129 CAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTAAAATTGTATCGATCCCA
936092 AAAAT
194 AAAAT
* * *
936097 ATCAAAACCGATAATTATAATGTAATATGTAAATTTACAATGTAACCGGTATAAATATACCGATT
1 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTT
* * * * * ** *
936162 ATATGATTGAATATGTCAATATAATGTATCGACACAAATTTAAAAAGTGTAAATACTTTTTTTCA
66 TTATGATAGAATATGTCAACATAATGTATTGACACAAATTTAAAAAGCGTCGATACTTTTTTCCA
* *
936227 GAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAAAATTTTATCGATCCCAAA
131 GAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAA
936292 AAT
196 AAT
* ** *
936295 ATCGAAACC-ATAATTAT-ATGTAATATGTAAATTTGTAATGTTACCGGTATAAATATACCGGTT
1 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTT
936358 T
66 T
936359 AGTTAGAAAA
Statistics
Matches: 400, Mismatches: 55, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
196 42 0.10
197 11 0.03
198 187 0.47
199 62 0.16
200 41 0.10
201 57 0.14
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (198 bp):
ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTT
TTATGATAGAATATGTCAACATAATGTATTGACACAAATTTAAAAAGCGTCGATACTTTTTTCCA
GAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAA
AAT
Found at i:936495 original size:23 final size:22
Alignment explanation
Indices: 936447--936575 Score: 68
Period size: 23 Copynumber: 5.9 Consensus size: 22
936437 CTAGTAATTA
* **
936447 ACCTATTTTATTATATAAGCACT
1 ACCTATTATATTATATAAG-TTT
936470 ACCTATTATATTATATAAGTGTT
1 ACCTATTATATTATATAAGT-TT
* * *
936493 ACCTAATATGTTAT-TATGTTT
1 ACCTATTATATTATATAAGTTT
* * * * *
936514 A-ATAATGT-TTACAGTAA-TTA
1 ACCTATTATATTATA-TAAGTTT
* *
936534 ACCTATTTTATTATATAAGTGCT
1 ACCTATTATATTATATAAGT-TT
*
936557 ACCTATTACATTATATAAG
1 ACCTATTATATTATATAAG
936576 CGCTATCTAA
Statistics
Matches: 80, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
19 3 0.04
20 8 0.10
21 12 0.15
22 9 0.11
23 48 0.60
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (22 bp):
ACCTATTATATTATATAAGTTT
Found at i:936580 original size:23 final size:23
Alignment explanation
Indices: 936534--936580 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
936524 ACAGTAATTA
** *
936534 ACCTATTTTATTATATAAGTGCT
1 ACCTATTACATTATATAAGCGCT
936557 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
936580 A
1 A
936581 TCTAATTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:936606 original size:87 final size:85
Alignment explanation
Indices: 936376--936606 Score: 306
Period size: 87 Copynumber: 2.7 Consensus size: 85
936366 AAATAGGTCA
*
936376 ATATAAGCGCTACCTATTACATTATATAAGCG--CTAATATGTTATTGTGCTTGATAATGTTTCT
1 ATATAAGCGCTACCTATTACATTATATAAGCGTACTAATATGTTATTATGCTTGATAATGTTTCT
936439 AGTAATTAACCTATTTTATT
66 AGTAATTAACCTATTTTATT
* * * * *
936459 ATATAAGCACTACCTATTATATTATATAAGTGTTACCTAATATGTTATTATGTTTAATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAGCG-TA-CTAATATGTTATTATGCTTGATAATGTTT
936524 AC-AGTAATTAACCTATTTTATT
64 -CTAGTAATTAACCTATTTTATT
* * * *
936546 ATATAAGTGCTACCTATTACATTATATAAGCGCTATCTAATTTGTTATTTTACTTGATAAT
1 ATATAAGCGCTACCTATTACATTATATAAGCG-TA-CTAATATGTTATTATGCTTGATAAT
936607 ATTTTCGTTT
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
83 29 0.23
87 96 0.76
88 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (85 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGTACTAATATGTTATTATGCTTGATAATGTTTCT
AGTAATTAACCTATTTTATT
Found at i:939547 original size:60 final size:62
Alignment explanation
Indices: 939480--939595 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 62
939470 CCACAGATCT
*
939480 GATCACG-ACGGGTACGT-AGTTTATCAGGACGAACTCTATGTCTCAACATGAGAAAATGGA
1 GATCACGAAAGGGTACGTAAGTTTATCAGGACGAACTCTATGTCTCAACATGAGAAAATGGA
939540 GATCACGAAAGGGTACGTAAGTTTATCAGGACGAACTCTATGTCTCAACATGAGAA
1 GATCACGAAAGGGTACGTAAGTTTATCAGGACGAACTCTATGTCTCAACATGAGAA
939596 GAAAATGGAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
60 7 0.13
61 9 0.17
62 37 0.70
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (62 bp):
GATCACGAAAGGGTACGTAAGTTTATCAGGACGAACTCTATGTCTCAACATGAGAAAATGGA
Found at i:940704 original size:12 final size:12
Alignment explanation
Indices: 940657--940707 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
940647 TAGTATTTGA
**
940657 TTTTTTTAATTT
1 TTTTTTTAAAAT
940669 TTTTTTTAAAAAT
1 TTTTTTT-AAAAT
*
940682 ATTTTTT--AAT
1 TTTTTTTAAAAT
940692 TTTTTTTAAAAT
1 TTTTTTTAAAAT
940704 TTTT
1 TTTT
940708 AAAAATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 9 0.28
12 14 0.44
13 9 0.28
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTTTAAAAT
Found at i:941180 original size:76 final size:77
Alignment explanation
Indices: 941054--941217 Score: 312
Period size: 76 Copynumber: 2.1 Consensus size: 77
941044 CGAGAACAAC
941054 AAGATCGAGACAGAACCCTAATTACCGGCCCGAAACAAATCAATGCCGCACATGATAAGTGCAAG
1 AAGATCGAGACAGAACCCTAATTACCGGCCCGAAACAAATCAATGCCGCACATGATAAGTGCAAG
941119 TAATTGAAT-GG
66 TAATTGAATGGG
941130 AAGATCGAGACAGAACCCTAATTACCGGCCCGAAACAAATCAATGCCGCACATGATAAGTGCAAG
1 AAGATCGAGACAGAACCCTAATTACCGGCCCGAAACAAATCAATGCCGCACATGATAAGTGCAAG
941195 TAATTGAATGGG
66 TAATTGAATGGG
941207 AAGATTCGAGA
1 AAGA-TCGAGA
941218 ACGAGCTAGC
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
76 74 0.86
77 6 0.07
78 6 0.07
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (77 bp):
AAGATCGAGACAGAACCCTAATTACCGGCCCGAAACAAATCAATGCCGCACATGATAAGTGCAAG
TAATTGAATGGG
Found at i:942973 original size:304 final size:305
Alignment explanation
Indices: 942368--942978 Score: 1133
Period size: 304 Copynumber: 2.0 Consensus size: 305
942358 TTTTTTGGAA
942368 ATTGAGAATATCTGGTTCTTTTCTGCTGTGTCAAAAATTGAATGGCAGTTCTTTATTTGGCTGGA
1 ATTGAGAATATCTGGTTCTTTTCTGCTGTGTCAAAAATTGAATGGCAGTTCTTTATTTGGCTGGA
942433 TGCCTGAGCTTAATTTGACTAAAAGATGTATTGTTTTCCCCCTTTTCAGATTTCTATCCTTTTGT
66 TGCCTGAGCTTAATTTGACTAAAAGATGTATTGTTTTCCCCCTTTTCAGATTTCTATCCTTTTGT
942498 ACCTGATAGATTCGTTGTTTCTGTTCAATTTCTTTCTCTTCCTTTCAGATGCTTTTCCCCCCTTC
131 ACCTGATAGATTCGTTGTTTCTGTTCAATTTCTTTCTCTTCCTTTCAGATGCTTTTCCCCCCTTC
942563 CATTTTTCCATTTTAGGTCCCTTAAATTGTTTCATTGTAATGTAAACATGCCATTGAAAGCTGTT
196 CATTTTTCCATTTTAGGTCCCTTAAATTGTTTCATTGTAATGTAAACATGCCATTGAAAGCTGTT
942628 TAAGAATTGCATTTGCATTCTTCTCTTTTCATTTAGTTTTAGTAG
261 TAAGAATTGCATTTGCATTCTTCTCTTTTCATTTAGTTTTAGTAG
942673 ATTGAGAATATCTGGTTCTTTTCTGCTGTGTCAAAAA-TGAAATGGCAGTTCTTTATTT-GCTGG
1 ATTGAGAATATCTGGTTCTTTTCTGCTGTGTCAAAAATTG-AATGGCAGTTCTTTATTTGGCTGG
942736 ATGCCTGAGCTTAATTTGACTAAATAGATGTATTGTTTTCCCCCTTTTCAAGATTTCTATCCTTT
65 ATGCCTGAGCTTAATTTGACTAAA-AGATGTATTGTTTTCCCCCTTTTC-AGATTTCTATCCTTT
*
942801 TGTACCTGATAGATTCGTTGTTTCTGTTCAATTTCTTTCTCTTCCTTTCAGATGCTTTT-TCCCC
128 TGTACCTGATAGATTCGTTGTTTCTGTTCAATTTCTTTCTCTTCCTTTCAGATGCTTTTCCCCCC
942865 TTCCA-TTTTCCATTTTAGGTCCCTTAAATTGTTTCATTGTAATGTAAACATGCCATTG-AAGCT
193 TTCCATTTTTCCATTTTAGGTCCCTTAAATTGTTTCATTGTAATGTAAACATGCCATTGAAAGCT
*
942928 GTTTAAGAATTGCATTTGCTTTCTTCTCTTTTCATTTTAGTTTTAGTAG
258 GTTTAAGAATTGCATTTGCATTCTTCTCTTTTCA-TTTAGTTTTAGTAG
942977 AT
1 AT
942979 AGGAAAAGTT
Statistics
Matches: 300, Mismatches: 2, Indels: 9
0.96 0.01 0.03
Matches are distributed among these distances:
303 38 0.13
304 100 0.33
305 88 0.29
306 74 0.25
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (305 bp):
ATTGAGAATATCTGGTTCTTTTCTGCTGTGTCAAAAATTGAATGGCAGTTCTTTATTTGGCTGGA
TGCCTGAGCTTAATTTGACTAAAAGATGTATTGTTTTCCCCCTTTTCAGATTTCTATCCTTTTGT
ACCTGATAGATTCGTTGTTTCTGTTCAATTTCTTTCTCTTCCTTTCAGATGCTTTTCCCCCCTTC
CATTTTTCCATTTTAGGTCCCTTAAATTGTTTCATTGTAATGTAAACATGCCATTGAAAGCTGTT
TAAGAATTGCATTTGCATTCTTCTCTTTTCATTTAGTTTTAGTAG
Found at i:945583 original size:81 final size:81
Alignment explanation
Indices: 945458--945620 Score: 278
Period size: 81 Copynumber: 2.0 Consensus size: 81
945448 AGTCTGAGCA
945458 AGATCATGTTCCTTCAGCAAAAAAAATTGTCGAGTTGTTGGGTCTTGTAATTGTC-TTTGGTTG-
1 AGATCATGTTCCTTCAGCAAAAAAAATTGTCGAGTTGTTGGGTCTTGTAATTGTCTTTTGGTTGT
945521 TAAGATATTCATTATG
66 TAAGATATTCATTATG
945537 AGATCATGTTCCTTTCAGCAAAAAAAAATTGTCGAGTTG-TGTGGTCTTGTAATTGTCTTTTGGT
1 AGATCATGTTCC-TTCAGC-AAAAAAAATTGTCGAGTTGTTG-GGTCTTGTAATTGTCTTTTGGT
945601 TGTTAAGATATTCATTATG
63 TGTTAAGATATTCATTATG
945620 A
1 A
945621 AATGAATGCA
Statistics
Matches: 79, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
79 12 0.15
80 8 0.10
81 34 0.43
82 8 0.10
83 17 0.22
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (81 bp):
AGATCATGTTCCTTCAGCAAAAAAAATTGTCGAGTTGTTGGGTCTTGTAATTGTCTTTTGGTTGT
TAAGATATTCATTATG
Found at i:951691 original size:15 final size:15
Alignment explanation
Indices: 951671--951702 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
951661 TTAATAGTTC
951671 CTTTTGAAAAGTATT
1 CTTTTGAAAAGTATT
951686 CTTTTGAAAAGTATT
1 CTTTTGAAAAGTATT
951701 CT
1 CT
951703 ATAGGTCGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (15 bp):
CTTTTGAAAAGTATT
Found at i:956948 original size:2 final size:2
Alignment explanation
Indices: 956941--957000 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
956931 ATGCACGCAC
956941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
956983 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
957001 CGATATGAGC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:961408 original size:51 final size:51
Alignment explanation
Indices: 961332--961485 Score: 308
Period size: 51 Copynumber: 3.0 Consensus size: 51
961322 TCATCCGTAA
961332 AACCGAGTGCCATGGGAGCTAACCTCTGTGTTCTTTCAACAGAGGATCAAT
1 AACCGAGTGCCATGGGAGCTAACCTCTGTGTTCTTTCAACAGAGGATCAAT
961383 AACCGAGTGCCATGGGAGCTAACCTCTGTGTTCTTTCAACAGAGGATCAAT
1 AACCGAGTGCCATGGGAGCTAACCTCTGTGTTCTTTCAACAGAGGATCAAT
961434 AACCGAGTGCCATGGGAGCTAACCTCTGTGTTCTTTCAACAGAGGATCAAT
1 AACCGAGTGCCATGGGAGCTAACCTCTGTGTTCTTTCAACAGAGGATCAAT
961485 A
1 A
961486 CCTGTAGCTG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 103 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (51 bp):
AACCGAGTGCCATGGGAGCTAACCTCTGTGTTCTTTCAACAGAGGATCAAT
Found at i:966773 original size:35 final size:35
Alignment explanation
Indices: 966725--966836 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
966715 AAAACATTCC
*
966725 TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
966760 TTAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* * * *
966795 TCAATTACATTCTAAAACCCAAATTCTAAAATATT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
966830 TCAATTT
1 TCAATTT
966837 AAGGAGGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:967557 original size:20 final size:19
Alignment explanation
Indices: 967516--967558 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
967506 TAAGTAAATA
*
967516 AATATTTAATTATAATGGT
1 AATATTTAATTATAATGAT
* *
967535 AATATTTATATTTTAATTAT
1 AATATTTA-ATTATAATGAT
967555 AATA
1 AATA
967559 GAAATAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
AATATTTAATTATAATGAT
Found at i:967931 original size:35 final size:35
Alignment explanation
Indices: 967882--967994 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 35
967872 AAAAAAGACA
* * *
967882 GAAATTGAAGTATTTTAGAATTTGGGTTTTATAAT
1 GAAATTGAATTATTTTGGAATTTGGGTTTTAAAAT
* *
967917 GTAATTGAATTATTTTGGAATTTAGGTTTTAAAAT
1 GAAATTGAATTATTTTGGAATTTGGGTTTTAAAAT
* *
967952 GAAATTGAATTACTTTGGAATTTGTGG-TTTAGAAT
1 GAAATTGAATTATTTTGGAATTTG-GGTTTTAAAAT
967987 GAAATTGA
1 GAAATTGA
967995 GGATTGTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 66 0.97
36 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (35 bp):
GAAATTGAATTATTTTGGAATTTGGGTTTTAAAAT
Found at i:969073 original size:26 final size:27
Alignment explanation
Indices: 969044--969095 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
969034 ATATTAACGT
969044 TAATAAAATA-TTCTTTCAT-AAAATTC
1 TAATAAAATATTTCTTTC-TCAAAATTC
**
969070 TAATTTAATATTTCTTTCTCAAAATT
1 TAATAAAATATTTCTTTCTCAAAATT
969096 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATAAAATATTTCTTTCTCAAAATTC
Found at i:970602 original size:31 final size:30
Alignment explanation
Indices: 970559--970621 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
970549 GTTAATGAAC
*
970559 TTTCACATATTATAAAACGGTCATTAAAAT
1 TTTCAAATATTATAAAACGGTCATTAAAAT
* *
970589 TTTCAAATGATTATGAAATGGTCATTAAAAT
1 TTTCAAAT-ATTATAAAACGGTCATTAAAAT
970620 TT
1 TT
970622 ATCATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTCAAATATTATAAAACGGTCATTAAAAT
Found at i:996128 original size:12 final size:12
Alignment explanation
Indices: 996113--996137 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
996103 TTATCTTTCA
996113 TGTTCGTTTTAC
1 TGTTCGTTTTAC
996125 TGTTCGTTTTAC
1 TGTTCGTTTTAC
996137 T
1 T
996138 ATTCATGTTC
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:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (12 bp):
TGTTCGTTTTAC
Found at i:996625 original size:107 final size:107
Alignment explanation
Indices: 996434--996630 Score: 259
Period size: 107 Copynumber: 1.8 Consensus size: 107
996424 ATAATAATTT
* * *
996434 GATAAATTTAATTATCATTATGTAACTTTGGAAAGTTCAATAGTCAAAACGGCCATTTAAGAATA
1 GATAAATTTAATTATCATTATATAACTTTGGAAAGTTCAATAATCAAAACGACCATTTAAGAATA
* * * *
996499 GTTCAATGCCATTTGATGTATTTTAGGTGAGAATCTTGATTC
66 GTTCAATGACAATTAATGTACTTTAGGTGAGAATCTTGATTC
* * * * * * *
996541 GATAAATTTAATTATTATTTTATAACTTTTGAAAGTTTAATAATCAAAACGATCATTTGAGCATA
1 GATAAATTTAATTATCATTATATAACTTTGGAAAGTTCAATAATCAAAACGACCATTTAAGAATA
*
996606 GTTCAGTGACAATTAATGTACTTTA
66 GTTCAATGACAATTAATGTACTTTA
996631 CCCTAAATTA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
107 75 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (107 bp):
GATAAATTTAATTATCATTATATAACTTTGGAAAGTTCAATAATCAAAACGACCATTTAAGAATA
GTTCAATGACAATTAATGTACTTTAGGTGAGAATCTTGATTC
Found at i:998338 original size:48 final size:47
Alignment explanation
Indices: 998256--1001106 Score: 1222
Period size: 48 Copynumber: 59.6 Consensus size: 47
998246 ACCGAAACCT
* * * *
998256 GAAGCACTAGCGCCACCATTTCCATCAACTTTAGCATGACCACTACCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * * * *
998304 GAAGCACTAGCGCCGCCATTTCCGCTAACATTAGCTTTACCACTGCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * *
998352 GAAGCACTAGCACCGCCACTCCCACCAACATTAGCTGCTCCACTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGCTG-ACCACTACCA
* *
998400 GAAGCACTAGCACCACCACCTCCACCAACATTAGCGTGACCACTTCC-
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * ** ** ** *
998447 GAAAGCCCTAACACTGCCACTTCCACCAACATTAGCTTGGTCGTTTCCA
1 G-AAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * *
998496 GAAGCACTAGCACCACCACTTCCACCAACATTAGCTTTACCACTTCCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * ** * * * ** *
998544 GAAGCACTGGCGCTGCCACTTCTACC-ACTTTTAGCTTCACCTTTGCCA
1 GAAGCACTAGCACCACCACTTCCACCAAC-ATTAGC-TGACCACTACCA
* ** * * * * * *
998592 GAAGCAATATTATCGCCATTTCCACCAATATTAGCTTGATCACTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * *
998640 GAACCACTAGCACCACCACTTCCACCAACATTAGCTTCACC-CTTGCCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCAC-TACCA
* * ** * *
998688 GAAGCATTAG-AGCCACCACTTTCACCAGTATTAGCTTCACC-CTTTCCA
1 GAAGCACTAGCA-CCACCACTTCCACCAACATTAGC-TGACCAC-TACCA
* * * *
998736 GAAGCACTAGCGCCTCCACTTCCACCAACATTAGCTTGACCACTCCCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * * ** * *
998784 GAAGCACTGGCGCCACCA-TTCCCATC-ACTTTTAGCTTCACCTTTGCCG
1 GAAGCACTAGCACCACCACTT-CCACCAAC-ATTAGC-TGACCACTACCA
** ** * *
998832 GAAGCACTAGCACTTCCACTTCCATTAATATTAGCTTGACCACTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
** * * *
998880 GAAGCACTAGTGCCACCACTTCCACCAACATTAGCT-TCTCCCTTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGCTGAC-CAC-TACCA
* *** * ** *
998928 GTAGCACTAGCATTGCCATTTCCGTCAACATTAGCTTGGCCACTACCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
** * * *
998976 GAAGCACTAGCACTGCCACTTCCACCGACATTAGTTTTACCACTACCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAG-CTGACCACTACCA
* ** * * * * *
999024 GAAGTACTAGCACCGTCACTCCCACCAACATTAGTTGCTCCACTTCTA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGCTG-ACCACTACCA
* * * * *
999072 GAAGAACTAGTACCACCACCTCCACCAACATTAGCATGACCACTTCTA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* ** * * **
999120 GAAACACTAGCACTGCCACTTCCACCAACATTAGCTTGGCCACTTCTG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * ** *
999168 GAAGTACTAGCGCCACCATTTCCACCAATATTAGCTTGACCACTTTCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * ** * *
999216 GAAGTACTAGCGCCACCACTT---------TTAGTTTCACCTTTATCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAG-CTGACCACTACCA
* * *
999255 GAAGCACTGGCACTACCACTTCCACCAACATTAGCTTGACCACTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* **
999303 GAAGCACTAGCACCACCACTTTCACCAACATTAGCTTGACCACCGCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * *
999351 GATGCACTAGCGCCTCCACTTCTACCAACATTAGCTTGGCCACCT-CCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCA-CTACCA
* ** * * * * *
999399 GAAACACTAGTGCCTCCACTTCTACCAACATTAGCTTCACC-CTTGCCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCAC-TACCA
* * * * *
999447 GAAGCACTAGCGCCACCACTTCCACTAGCATTAGCTTCACC-CTTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCAC-TACCA
* * ** * * * * *
999495 TAAGCATTAGCGTCGCCACTTTCACCAACATTAGTTTGACCACTTCCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAG-CTGACCACTACCA
* * ** * * * *
999543 GAAGCAGTGGC-GGATCCACTTCCACCGATATTAGCTTCACC-CTTACCG
1 GAAGCACTAGCACCA-CCACTTCCACCAACATTAGC-TGACCAC-TACCA
**** * * *
999591 GAAGCACTAGCGTTGCCACTTCCACCAACTTTAGTTTGACCACTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAG-CTGACCACTACCA
* * * * * *
999639 GAAGCACCAACGCCTCCATTTCCACCAACATTAGCTTGACCACTACCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
** * * * *
999687 GAAGCACTAGTGCGACCA-TTGCCATC-ACTTTTAGCT--TCACTTTACCA
1 GAAGCACTAGCACCACCACTT-CCACCAAC-ATTAGCTGACCAC--TACCA
* * * *
999734 AAAGCACTGGTACCACCACTTCCACCAACATTAGCTTGACCACTACCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * * ** *
999782 GAAGCACTAGCACTACTA-TTACCATC-ACTTTTAGCTTTACCTTTGCCA
1 GAAGCACTAGCACCACCACTT-CCACCAAC-ATTAGC-TGACCACTACCA
* * * * *
999830 GCAGCACTAGCACCGCCACTGCCAATTTCACCAACATTAGCCTCACC-CTTGCCA
1 GAAGCACTAGCA---CCA---CCACTTCCACCAACATTAG-CTGACCAC-TACCA
* * ** * * * *
999884 AAAGCACTACCGTCACCACTTCCACC-ACTTTTAGTTTCACC-CTTACCG
1 GAAGCACTAGCACCACCACTTCCACCAAC-ATTAG-CTGACCAC-TACCA
** * * * *
999932 GAAGCACTAGTGCCACCACTTCTACCAGCATTAGCTTGACCACTGCCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * *
999980 GAAGCACTAGCACCACCACTTACACC-ACTTTTAGCTTCACC-CTTGCCG
1 GAAGCACTAGCACCACCACTTCCACCAAC-ATTAGC-TGACCAC-TACCA
* * ** * * * * *
1000028 GAAGCACTTGTACTGCCCCTACCACCAACATTAGTTTCACC-CTTCCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAG-CTGACCAC-TACCA
* * *
1000076 AAAGCACTAGCACCACCACTTCCACCAACATTAGCTTGACCACTGCCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * *
1000124 GAAGCACT-GCCACCGCCACTTCCACTAACATTGGCTTGACCACTGCCA
1 GAAGCACTAG-CACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* *
1000172 GAAGCACT-GACACCACCACTTCCACC-ACTTTTAGCTTCACC-CTTACC-
1 GAAGCACTAG-CACCACCACTTCCACCAAC-ATTAGC-TGACCAC-TACCA
** * * * * *
1000219 GAAAGCACTAGCGTCTCCACTTCCACCAATATTAGCTTGACCATTTCCG
1 G-AAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * *
1000268 GAAGCACTGGCGCCACCACTTCCACCAACATTAGCTTGACCACTGCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
** * ** *
1000316 GAAGCACTAGCACCACCACTT----TTAGATT--C--ACCTTTACCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGCTGACCACTACCA
* * * * * * * * *
1000355 GAAACACTTGTACTACCACTACCACCAACAATAGCTTCACTC-TTCCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGAC-CACTACCA
* * * * *
1000403 GAAGCATTGGCACTACCACTTCCACTAACATTAGCTTGACCACTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* ** *
1000451 GAAGCACTAGCACCTCCACTTCCACCAACATTAGCTTGACCACTGTCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * *
1000499 GAAGCACTGGCGCCACCACTTTCACCAACCTTAGCTTGACCACTACCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * * **
1000547 GAAGCACT-GACACCACCACTTCTA-CTACTTTTAGCTTCACC-CTTGCTG
1 GAAGCACTAG-CACCACCACTTCCACCAAC-ATTAGC-TGACCAC-TACCA
* * * * * *
1000595 GAAGCACTTGCACTGCTACTACTACTACCACTAACATTAGTTTGACCACTTCTA
1 GAAGCACTAGCAC--C-AC--C-ACTTCCACCAACATTAG-CTGACCACTACCA
* *
1000649 GAAGCACTGGCACCACCACTTCCACCAACATTAGCTTGACCACTGCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * * * **
1000697 GAAGCA-TTGACGCCATCGCTTCCACC-ACTTTTAGCTTCACC-CTTACTG
1 GAAGCACTAG-CACCACCACTTCCACCAAC-ATTAGC-TGACCAC-TACCA
* * * * *
1000745 GAAGCACTAGCGCCTCCACTTCCATCAACATTTGCTTGACCACTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * ** * * *
1000793 AAAGCACTGGCGCTGCCACTTCCACCAACATTAACTTGACCACTTCCT
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * *** * * *
1000841 GAAGCACTAGCACCCCCTCTTCCTCCAGTTTTAGCTTCACC-CTTCCCG
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCAC-TACCA
* * *
1000889 GAAGCACTGGCACCACCACTTCCACCTACATTAGCTTGACCACTTCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
** *** * * *
1000937 GAAGCACCGGCACTGGCACCTCCACCAATATTAGCTTGACCACTGCCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* * * * *
1000985 GAAGCACTTGCACCACCACTTCCACCTACATTGGCTTGACTACTACTA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
**
1001033 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTACCA
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGC-TGACCACTACCA
* *
1001081 GAAGCACTAGCACCGCCAATTCCACC
1 GAAGCACTAGCACCACCACTTCCACC
1001107 GCTTTTAGCT
Statistics
Matches: 2154, Mismatches: 533, Indels: 232
0.74 0.18 0.08
Matches are distributed among these distances:
39 51 0.02
42 1 0.00
43 3 0.00
44 4 0.00
45 4 0.00
46 2 0.00
47 74 0.03
48 1905 0.88
49 33 0.02
50 5 0.00
51 8 0.00
52 1 0.00
53 1 0.00
54 54 0.03
55 8 0.00
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.23
Consensus pattern (47 bp):
GAAGCACTAGCACCACCACTTCCACCAACATTAGCTGACCACTACCA
Found at i:998370 original size:24 final size:24
Alignment explanation
Indices: 998342--998418 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
998332 CATTAGCTTT
*
998342 ACCACTGCCAGAAGCACTAGCACC
1 ACCACTCCCAGAAGCACTAGCACC
* * * **
998366 GCCACTCCCACCAA-CATTAGCTGC
1 ACCACTCCCA-GAAGCACTAGCACC
* *
998390 TCCACTTCCAGAAGCACTAGCACC
1 ACCACTCCCAGAAGCACTAGCACC
998414 ACCAC
1 ACCAC
998419 CTCCACCAAC
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
23 2 0.05
24 34 0.89
25 2 0.05
ACGTcount: A:0.30, C:0.44, G:0.13, T:0.13
Consensus pattern (24 bp):
ACCACTCCCAGAAGCACTAGCACC
Found at i:998395 original size:96 final size:96
Alignment explanation
Indices: 998256--1001106 Score: 1789
Period size: 96 Copynumber: 29.8 Consensus size: 96
998246 ACCGAAACCT
* ** * * * * * * *
998256 GAAGCACTAGCGCCACCATTTCCATCAACTTTAGCATGACCACTACCAGAAGCACTAGCGCCGCC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
* * * * *
998321 ATTTCCGCTAACATTAGCTTTACCACTGCCA
66 ACTTCCACCAACATTAGCTTGACCACTTCCA
* * *
998352 GAAGCACTAGCACCGCCACTCCCACCAACATTAGC-TGCTCCACTTCCAGAAGCACTAGCACCAC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTG-ACCACTTCCAGAAGCACTAGCACCAC
* *
998416 CACCTCCACCAACATTAGCGTGACCACTTCC-
65 CACTTCCACCAACATTAGCTTGACCACTTCCA
* * ** **
998447 GAAAGCCCTAACACTGCCACTTCCACCAACATTAGCTTGGTCGTTTCCAGAAGCACTAGCACCAC
1 G-AAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCAC
* *
998512 CACTTCCACCAACATTAGCTTTACCACTTCCG
65 CACTTCCACCAACATTAGCTTGACCACTTCCA
* * * * * * * ** * *
998544 GAAGCACTGGCGCTGCCACTTCTACC-ACTTTTAGCTTCACC-TTTGCCAGAAGCAATATTATCG
1 GAAGCACTAGCACTGCCACTTCCACCAAC-ATTAGCTTGACCACTT-CCAGAAGCACTAGCACCA
* * *
998607 CCATTTCCACCAATATTAGCTTGATCACTTCCA
64 CCACTTCCACCAACATTAGCTTGACCACTTCCA
* ** * * *
998640 GAACCACTAGCACCACCACTTCCACCAACATTAGCTTCACC-CTTGCCGGAAGCATTAG-AGCCA
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTT-CCAGAAGCACTAGCA-CCA
* ** *
998703 CCACTTTCACCAGTATTAGCTTCACC-CTTTCCA
64 CCACTTCCACCAACATTAGCTTGACCAC-TTCCA
* * * * *
998736 GAAGCACTAGCGCCT-CCACTTCCACCAACATTAGCTTGACCACTCCCGGAAGCACTGGCGCCAC
1 GAAGCACTAGC-ACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCAC
* * * * *
998800 CA-TTCCCATC-ACTTTTAGCTTCACC-TTTGCCG
65 CACTT-CCACCAAC-ATTAGCTTGACCACTT-CCA
* ** * **
998832 GAAGCACTAGCACTTCCACTTCCATTAATATTAGCTTGACCACTTCCAGAAGCACTAGTGCCACC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
**
998897 ACTTCCACCAACATTAGCTTCTCC-CTTTCCA
66 ACTTCCACCAACATTAGCTTGACCAC-TTCCA
* * * ** * * **
998928 GTAGCACTAGCATTGCCATTTCCGTCAACATTAGCTTGGCCACTACCAGAAGCACTAGCACTGCC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
* * * *
998993 ACTTCCACCGACATTAGTTTTACCACTACCA
66 ACTTCCACCAACATTAGCTTGACCACTTCCA
* * * * * * * *
999024 GAAGTACTAGCACCGTCACTCCCACCAACATTAG-TTGCTCCACTTCTAGAAGAACTAGTACCAC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTG-ACCACTTCCAGAAGCACTAGCACCAC
* * *
999088 CACCTCCACCAACATTAGCATGACCACTTCTA
65 CACTTCCACCAACATTAGCTTGACCACTTCCA
* * ** * *
999120 GAAACACTAGCACTGCCACTTCCACCAACATTAGCTTGGCCACTTCTGGAAGTACTAGCGCCACC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
* * * *
999185 ATTTCCACCAATATTAGCTTGACCACTTTCG
66 ACTTCCACCAACATTAGCTTGACCACTTCCA
* ** * * * * * * *
999216 GAAGTACTAG--C-GCCA---CCA-C--TTTTAGTTTCACC-TTTATCGGAAGCACTGGCACTAC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTT-CCAGAAGCACTAGCACCAC
999271 CACTTCCACCAACATTAGCTTGACCACTTCCA
65 CACTTCCACCAACATTAGCTTGACCACTTCCA
** * ** * * *
999303 GAAGCACTAGCACCACCACTTTCACCAACATTAGCTTGACCACCGCCAGATGCACTAGCGCCTCC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
* * *
999368 ACTTCTACCAACATTAGCTTGGCCACCTCCA
66 ACTTCCACCAACATTAGCTTGACCACTTCCA
* * * * *
999399 GAAACACTAGTGC-CT-CCACTTCTACCAACATTAGCTTCACC-CTTGCCGGAAGCACTAGCGCC
1 GAAGCACTA--GCACTGCCACTTCCACCAACATTAGCTTGACCACTT-CCAGAAGCACTAGCACC
* * *
999461 ACCACTTCCACTAGCATTAGCTTCACC-CTTTCCA
63 ACCACTTCCACCAACATTAGCTTGACCAC-TTCCA
* * * * * * * * **
999495 TAAGCATTAGC-GTCGCCACTTTCACCAACATTAGTTTGACCACTTCCGGAAGCAGTGGC-GGAT
1 GAAGCACTAGCACT-GCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCA-
* * * *
999558 CCACTTCCACCGATATTAGCTTCACC-CTTACCG
64 CCACTTCCACCAACATTAGCTTGACCACTT-CCA
** * * * * * *
999591 GAAGCACTAGCGTTGCCACTTCCACCAACTTTAGTTTGACCACTTCCAGAAGCACCAACGCCTCC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
* * *
999656 ATTTCCACCAACATTAGCTTGACCACTACCG
66 ACTTCCACCAACATTAGCTTGACCACTTCCA
** * * * * *
999687 GAAGCACTAGTGC-GACCA-TTGCCATC-ACTTTTAGCTT---CACTTTACCAAAAGCACTGGTA
1 GAAGCACTAGCACTG-CCACTT-CCACCAAC-ATTAGCTTGACCAC-TT-CCAGAAGCACTAGCA
* *
999746 CCACCACTTCCACCAACATTAGCTTGACCACTACCG
61 CCACCACTTCCACCAACATTAGCTTGACCACTTCCA
* * * * * * *
999782 GAAGCACTAGCACTACTA-TTACCATC-ACTTTTAGCTTTACC-TTTGCCAGCAGCACTAGCACC
1 GAAGCACTAGCACTGCCACTT-CCACCAAC-ATTAGCTTGACCACTT-CCAGAAGCACTAGCA--
* * * *
999844 GCCACTGCCAATTTCACCAACATTAGCCTCACC-CTTGCCA
61 -CCA---CCACTTCCACCAACATTAGCTTGACCACTT-CCA
* * * * * * **
999884 AAAGCACTA-C-CGTCACCACTTCCACC-ACTTTTAGTTTCACC-CTTACCGGAAGCACTAGTGC
1 GAAGCACTAGCAC-T-GCCACTTCCACCAAC-ATTAGCTTGACCACTT-CCAGAAGCACTAGCAC
* * * *
999945 CACCACTTCTACCAGCATTAGCTTGACCACTGCCG
62 CACCACTTCCACCAACATTAGCTTGACCACTTCCA
** * * * * * * **
999980 GAAGCACTAGCACCACCACTTACACC-ACTTTTAGCTTCACC-CTTGCCGGAAGCACTTGTACTG
1 GAAGCACTAGCACTGCCACTTCCACCAAC-ATTAGCTTGACCACTT-CCAGAAGCACTAGCACCA
* * * *
1000043 CCCCTACCACCAACATTAGTTTCACC-CTTCCCA
64 CCACTTCCACCAACATTAGCTTGACCACTT-CCA
* ** * * *
1000076 AAAGCACTAGCACCACCACTTCCACCAACATTAGCTTGACCACTGCCGGAAGCACT-GCCACCGC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAG-CACCAC
* * *
1000140 CACTTCCACTAACATTGGCTTGACCACTGCCA
65 CACTTCCACCAACATTAGCTTGACCACTTCCA
** * * **
1000172 GAAGCACT-GACACCACCACTTCCACC-ACTTTTAGCTTCACC-CTTACC-GAAAGCACTAGCGT
1 GAAGCACTAG-CACTGCCACTTCCACCAAC-ATTAGCTTGACCACTT-CCAG-AAGCACTAGCAC
* * * *
1000233 CTCCACTTCCACCAATATTAGCTTGACCATTTCCG
62 CACCACTTCCACCAACATTAGCTTGACCACTTCCA
* * ** *
1000268 GAAGCACTGGCGCCACCACTTCCACCAACATTAGCTTGACCACTGCCAGAAGCACTAGCACCACC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
* * * *
1000333 ACTT---------TTAGATTCACC-TTTACCG
66 ACTTCCACCAACATTAGCTTGACCACTT-CCA
* * * * * * * * * * *
1000355 GAAACACTTGTACTACCACTACCACCAACAATAGCTTCA-CTCTTCCCAGAAGCATTGGCACTAC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTT-CCAGAAGCACTAGCACCAC
*
1000419 CACTTCCACTAACATTAGCTTGACCACTTCCA
65 CACTTCCACCAACATTAGCTTGACCACTTCCA
* * *
1000451 GAAGCACTAGCACCT-CCACTTCCACCAACATTAGCTTGACCACTGT-CGGAAGCACTGGCGCCA
1 GAAGCACTAGCA-CTGCCACTTCCACCAACATTAGCTTGACCACT-TCCAGAAGCACTAGCACCA
* * * *
1000514 CCACTTTCACCAACCTTAGCTTGACCACTACCG
64 CCACTTCCACCAACATTAGCTTGACCACTTCCA
** * * * * ** *
1000547 GAAGCACT-GACACCACCACTTCTA-CTACTTTTAGCTTCACC-CTTGCTGGAAGCACTTGCACT
1 GAAGCACTAG-CACTGCCACTTCCACCAAC-ATTAGCTTGACCACTT-CCAGAAGCACTAGCAC-
* * * *
1000609 GCTACTACTACTACCACTAACATTAGTTTGACCACTTCTA
62 -C-AC--C-ACTTCCACCAACATTAGCTTGACCACTTCCA
* ** * * * *
1000649 GAAGCACTGGCACCACCACTTCCACCAACATTAGCTTGACCACTGCCAGAAGCA-TTGACGCCAT
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAG-CACCAC
* * * **
1000713 CGCTTCCACC-ACTTTTAGCTTCACC-CTTACTG
65 CACTTCCACCAAC-ATTAGCTTGACCACTT-CCA
* * * * * * **
1000745 GAAGCACTAGCGCCT-CCACTTCCATCAACATTTGCTTGACCACTTCCAAAAGCACTGGCGCTGC
1 GAAGCACTAGC-ACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCAC
* *
1000809 CACTTCCACCAACATTAACTTGACCACTTCCT
65 CACTTCCACCAACATTAGCTTGACCACTTCCA
** * * *** * * *
1000841 GAAGCACTAGCACCCCCTCTTCCTCCAGTTTTAGCTTCACC-CTTCCCGGAAGCACTGGCACCAC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTT-CCAGAAGCACTAGCACCAC
*
1000905 CACTTCCACCTACATTAGCTTGACCACTTCCA
65 CACTTCCACCAACATTAGCTTGACCACTTCCA
** * * * * *
1000937 GAAGCACCGGCACTGGCACCTCCACCAATATTAGCTTGACCACTGCCAGAAGCACTTGCACCACC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
* * * * *
1001002 ACTTCCACCTACATTGGCTTGACTACTACTA
66 ACTTCCACCAACATTAGCTTGACCACTTCCA
* *
1001033 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACTAGCACCGCC
1 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
*
1001098 AATTCCACC
66 ACTTCCACC
1001107 GCTTTTAGCT
Statistics
Matches: 2167, Mismatches: 468, Indels: 240
0.75 0.16 0.08
Matches are distributed among these distances:
86 8 0.00
87 122 0.06
89 2 0.00
90 6 0.00
93 9 0.00
94 8 0.00
95 128 0.06
96 1664 0.77
97 59 0.03
98 6 0.00
99 9 0.00
100 2 0.00
101 8 0.00
102 128 0.06
103 8 0.00
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.23
Consensus pattern (96 bp):
GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACC
ACTTCCACCAACATTAGCTTGACCACTTCCA
Found at i:998434 original size:24 final size:24
Alignment explanation
Indices: 998359--998434 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
998349 CCAGAAGCAC
*
998359 TAGCACCGCCA-CTCCCACCAACAT
1 TAGCACCACCACCT-CCACCAACAT
** * * * *
998383 TAGCTGCTCCACTTCCA-GAAGCAC
1 TAGCACCACCACCTCCACCAA-CAT
998407 TAGCACCACCACCTCCACCAACAT
1 TAGCACCACCACCTCCACCAACAT
998431 TAGC
1 TAGC
998435 GTGACCACTT
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
23 2 0.05
24 32 0.86
25 3 0.08
ACGTcount: A:0.29, C:0.45, G:0.11, T:0.16
Consensus pattern (24 bp):
TAGCACCACCACCTCCACCAACAT
Found at i:998680 original size:24 final size:24
Alignment explanation
Indices: 998611--998779 Score: 69
Period size: 24 Copynumber: 7.0 Consensus size: 24
998601 TTATCGCCAT
* * *
998611 TTCCACCAATATTAGCTTGATCAC
1 TTCCACCAACATTAGCTTCACCAC
* * **
998635 TTCCA-GAACCACTAGCACCACCAC
1 TTCCACCAA-CATTAGCTTCACCAC
998659 TTCCACCAACATTAGCTTCACC-C
1 TTCCACCAACATTAGCTTCACCAC
** ***
998682 TTGCC-GGAAGCATTAGAGCCACCAC
1 TT-CCACCAA-CATTAGCTTCACCAC
* **
998707 TTTCACCAGTATTAGCTTCACC-C
1 TTCCACCAACATTAGCTTCACCAC
* * ** *
998730 TTTCCA-GAAGCACTAGCGCCTCCAC
1 -TTCCACCAA-CATTAGCTTCACCAC
*
998755 TTCCACCAACATTAGCTTGACCAC
1 TTCCACCAACATTAGCTTCACCAC
998779 T
1 T
998780 CCCGGAAGCA
Statistics
Matches: 97, Mismatches: 38, Indels: 20
0.63 0.25 0.13
Matches are distributed among these distances:
23 9 0.09
24 79 0.81
25 9 0.09
ACGTcount: A:0.27, C:0.37, G:0.11, T:0.24
Consensus pattern (24 bp):
TTCCACCAACATTAGCTTCACCAC
Found at i:998949 original size:24 final size:24
Alignment explanation
Indices: 998923--998999 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
998913 GCTTCTCCCT
*
998923 TTCCAGTAGCACTAGCATTGCCAT
1 TTCCAGTAGCACTAGCATTGCCAC
* *
998947 TTCC-GTCAACATTAGC-TTGGCCAC
1 TTCCAGT-AGCACTAGCATT-GCCAC
* * *
998971 TACCAGAAGCACTAGCACTGCCAC
1 TTCCAGTAGCACTAGCATTGCCAC
998995 TTCCA
1 TTCCA
999000 CCGACATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
23 4 0.10
24 34 0.85
25 2 0.05
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.25
Consensus pattern (24 bp):
TTCCAGTAGCACTAGCATTGCCAC
Found at i:999161 original size:24 final size:24
Alignment explanation
Indices: 999087--999165 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
999077 ACTAGTACCA
* *
999087 CCACCTCCACCAACATTAGCATGA
1 CCACTTCCACCAACATTAGCATGG
* ** *
999111 CCACTTCTAGAAACACTAGCACT-G
1 CCACTTCCACCAACATTAGCA-TGG
*
999135 CCACTTCCACCAACATTAGCTTGG
1 CCACTTCCACCAACATTAGCATGG
999159 CCACTTC
1 CCACTTC
999166 TGGAAGTACT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
23 1 0.02
24 40 0.95
25 1 0.02
ACGTcount: A:0.29, C:0.39, G:0.10, T:0.22
Consensus pattern (24 bp):
CCACTTCCACCAACATTAGCATGG
Found at i:999301 original size:24 final size:24
Alignment explanation
Indices: 999269--999345 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
999259 CACTGGCACT
999269 ACCACTTCCACCAACATTAGCTTG
1 ACCACTTCCACCAACATTAGCTTG
* * ***
999293 ACCACTTCCA-GAAGCACTAGCACC
1 ACCACTTCCACCAA-CATTAGCTTG
*
999317 ACCACTTTCACCAACATTAGCTTG
1 ACCACTTCCACCAACATTAGCTTG
999341 ACCAC
1 ACCAC
999346 CGCCAGATGC
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.31, C:0.39, G:0.09, T:0.21
Consensus pattern (24 bp):
ACCACTTCCACCAACATTAGCTTG
Found at i:999360 original size:135 final size:135
Alignment explanation
Indices: 999124--999371 Score: 345
Period size: 135 Copynumber: 1.8 Consensus size: 135
999114 CTTCTAGAAA
* * ** * *
999124 CACTAGCACTGCCACTTCCACCAACATTAGCTTGGCCACTTCTGGAAGTACTAGCGCCACCATTT
1 CACTAGCACTACCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACCATTT
* *** * *
999189 CCACCAATATTAGCTTGACCACTTTCGGAAGTACTAGCGCCACCACTTTTAGTTTCACCTTTATC
66 CCACCAACATTAGCTTGACCACCGCCAGAAGCACTAGCGCCACCACTTTTAGTTTCACCTTTATC
999254 GGAAG
131 GGAAG
*
999259 CACTGGCACTACCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACCACTT
1 CACTAGCACTACCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACCA-TT
* *
999324 T-CACCAACATTAGCTTGACCACCGCCAGATGCACTAGCGCCTCCACTT
65 TCCACCAACATTAGCTTGACCACCGCCAGAAGCACTAGCGCCACCACTT
999372 CTACCAACAT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
135 94 0.97
136 3 0.03
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.24
Consensus pattern (135 bp):
CACTAGCACTACCACTTCCACCAACATTAGCTTGACCACTTCCAGAAGCACTAGCACCACCATTT
CCACCAACATTAGCTTGACCACCGCCAGAAGCACTAGCGCCACCACTTTTAGTTTCACCTTTATC
GGAAG
Found at i:999385 original size:24 final size:24
Alignment explanation
Indices: 999358--999433 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
999348 CCAGATGCAC
999358 TAGCGCCTCCACTTCTACCAACAT
1 TAGCGCCTCCACTTCTACCAACAT
**** * * ** *
999382 TAGCTTGGCCACCTCCAGAAACAC
1 TAGCGCCTCCACTTCTACCAACAT
*
999406 TAGTGCCTCCACTTCTACCAACAT
1 TAGCGCCTCCACTTCTACCAACAT
999430 TAGC
1 TAGC
999434 TTCACCCTTG
Statistics
Matches: 32, Mismatches: 20, Indels: 0
0.62 0.38 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.24
Consensus pattern (24 bp):
TAGCGCCTCCACTTCTACCAACAT
Found at i:999487 original size:24 final size:24
Alignment explanation
Indices: 999460--999541 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
999450 GCACTAGCGC
999460 CACCACTTCCACTAGCATTAGCTT
1 CACCACTTCCACTAGCATTAGCTT
*
999484 CACC-CTTTCCA-TAAGCATTAGCGT
1 CACCAC-TTCCACT-AGCATTAGCTT
* * * * *
999508 CGCCACTTTCACCAACATTAGTTT
1 CACCACTTCCACTAGCATTAGCTT
*
999532 GACCACTTCC
1 CACCACTTCC
999542 GGAAGCAGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.05
24 41 0.93
25 1 0.02
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (24 bp):
CACCACTTCCACTAGCATTAGCTT
Found at i:1000435 original size:135 final size:134
Alignment explanation
Indices: 1000193--1000471 Score: 357
Period size: 135 Copynumber: 2.1 Consensus size: 134
1000183 ACCACCACTT
* * * * *
1000193 CCACCACTTTTAGCTTCACCCTTACCGAAAGCACTAGCGTCTCCACTTCCACCAATATTAGCTTG
1 CCACCACTTTTAGATTCACCCTTACCGAAAGCACTA-CGTCTCCACTACCACCAACAATAGCTTC
* * *
1000258 ACCATTTCCGGAAGCACTGGCGCCACCACTTCCACCAACATTAGCTTGACCACTGCCAGAAGCAC
65 ACCATTCCCAGAAGCACTGGCACCACCACTTCCACCAACATTAGCTTGACCACTGCCAGAAGCAC
1000323 TAGCA
130 TAGCA
* *
1000328 CCACCACTTTTAGATTCACCTTTACCGGAAA-CACT-TGTACTACCACTACCACCAACAATAGCT
1 CCACCACTTTTAGATTCACCCTTACC-GAAAGCACTACGT-CT-CCACTACCACCAACAATAGCT
* * * *
1000391 TCACTC-TTCCCAGAAGCATTGGCACTACCACTTCCACTAACATTAGCTTGACCACTTCCAGAAG
63 TCAC-CATTCCCAGAAGCACTGGCACCACCACTTCCACCAACATTAGCTTGACCACTGCCAGAAG
1000455 CACTAGCA
127 CACTAGCA
*
1000463 CCTCCACTT
1 CCACCACTT
1000472 CCACCAACAT
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
133 2 0.02
134 2 0.02
135 116 0.93
136 5 0.04
ACGTcount: A:0.28, C:0.37, G:0.12, T:0.24
Consensus pattern (134 bp):
CCACCACTTTTAGATTCACCCTTACCGAAAGCACTACGTCTCCACTACCACCAACAATAGCTTCA
CCATTCCCAGAAGCACTGGCACCACCACTTCCACCAACATTAGCTTGACCACTGCCAGAAGCACT
AGCA
Found at i:1000444 original size:24 final size:24
Alignment explanation
Indices: 1000417--1000494 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
1000407 CATTGGCACT
*
1000417 ACCACTTCCACTAACATTAGCTTG
1 ACCACTTCCACCAACATTAGCTTG
* * ***
1000441 ACCACTTCCA-GAAGCACTAGCACC
1 ACCACTTCCACCAA-CATTAGCTTG
*
1000465 TCCACTTCCACCAACATTAGCTTG
1 ACCACTTCCACCAACATTAGCTTG
1000489 ACCACT
1 ACCACT
1000495 GTCGGAAGCA
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.29, C:0.38, G:0.09, T:0.23
Consensus pattern (24 bp):
ACCACTTCCACCAACATTAGCTTG
Found at i:1001091 original size:24 final size:24
Alignment explanation
Indices: 1001018--1001091 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
1001008 ACCTACATTG
* *
1001018 GCTTGACTACTACTAGAAGCACTA
1 GCTTGACCACTACCAGAAGCACTA
* * * *
1001042 GCACTG-CCACTTCCACCAA-CATTA
1 GC-TTGACCACTACCA-GAAGCACTA
1001066 GCTTGACCACTACCAGAAGCACTA
1 GCTTGACCACTACCAGAAGCACTA
1001090 GC
1 GC
1001092 ACCGCCAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
23 4 0.11
24 28 0.78
25 4 0.11
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (24 bp):
GCTTGACCACTACCAGAAGCACTA
Found at i:1001133 original size:96 final size:95
Alignment explanation
Indices: 1000369--1001261 Score: 520
Period size: 96 Copynumber: 9.2 Consensus size: 95
1000359 CACTTGTACT
* * * * * * **
1000369 ACCACTACCACCAACAATAGCTTCACTC-TTCCCAGAAGCATTGGCACTACCACTTCCA-CTAAC
1 ACCACTTCCACCAACATTAGCTTGAC-CACTACCAGAAGCACTGGCACCGCCACTTCCACCT-AC
*
1000432 ATTAGCTTGACCACTTCCAGAAGCACTAGCACC
64 ATTAGCTTGACC-CTTACAGAAGCACTAGCACC
* ** * * * * * *
1000465 TCCACTTCCACCAACATTAGCTTGACCACTGTCGGAAGCACTGGCGCCACCACTTTCACCAACCT
1 ACCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACTGGCACCGCCACTTCCACCTACAT
*
1000530 TAGCTTGACCAC-TACCGGAAGCACT-GACACC
66 TAGCTTGACC-CTTA-CAGAAGCACTAG-CACC
* * * * * ** * *
1000561 ACCACTTCTA-CTACTTTTAGCTTCACC-CTTGCTGGAAGCACTTGCACTGCTACTACTACTACC
1 ACCACTTCCACCAAC-ATTAGCTTGACCAC-TACCAGAAGCACTGGCACCGC--C-ACT--T-CC
* *
1000624 A-CTAACATTAGTTTGACCACTT-CTAGAAGCACTGGCACC
58 ACCT-ACATTAGCTTGACC-CTTAC-AGAAGCACTAGCACC
* * * * ** * *
1000663 ACCACTTCCACCAACATTAGCTTGACCACTGCCAGAAGCATTGACGCCATCGCTTCCACC-ACTT
1 ACCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACTGGCACCGCCACTTCCACCTAC-A
* * *
1000727 TTAGCTTCACCCTTACTGGAAGCACTAGCGCC
65 TTAGCTTGACCCTTAC-AGAAGCACTAGCACC
* * * * * * * *
1000759 TCCACTTCCATCAACATTTGCTTGACCACTTCCAAAAGCACTGGCGCTGCCACTTCCACCAACAT
1 ACCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACTGGCACCGCCACTTCCACCTACAT
* * *
1000824 TAACTTGACCACTTCCTGAAGCACTAGCACC
66 TAGCTTGACC-CTTACAGAAGCACTAGCACC
* * * *** * * * *
1000855 CCCTCTTCCTCCAGTTTTAGCTTCACC-CTTCCCGGAAGCACTGGCACCACCACTTCCACCTACA
1 ACCACTTCCACCAACATTAGCTTGACCAC-TACCAGAAGCACTGGCACCGCCACTTCCACCTACA
* ** *
1000919 TTAGCTTGACCACTTCCAGAAGCACCGGCACT
65 TTAGCTTGACC-CTTACAGAAGCACTAGCACC
** * * * * *
1000951 GGCACCTCCACCAATATTAGCTTGACCACTGCCAGAAGCACTTGCACCACCACTTCCACCTACAT
1 ACCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACTGGCACCGCCACTTCCACCTACAT
* * *
1001016 TGGCTTGACTAC-TACTAGAAGCACTAGCACT
66 TAGCTTGAC-CCTTAC-AGAAGCACTAGCACC
* * * * *
1001047 GCCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACTAGCACCGCCAATTCCACC-GCTT
1 ACCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACTGGCACCGCCACTTCCACCTAC-A
* * *
1001111 TTAGCTTCACCCTTAGACGAAGCACTAGCCCC
65 TTAGCTTGACCCTTACA-GAAGCACTAGCACC
* * * * * * * *
1001143 ACCA-TGTCCACCAACGTTAGCTTGATCATTACCAGAGGCACTGGCGCCACTA-TGTCCACCAAC
1 ACCACT-TCCACCAACATTAGCTTGACCACTACCAGAAGCACTGGCACCGCCACT-TCCACCTAC
* * * * * *
1001206 ACTGGCTTCACCCTTGCTAAAAGCACTAGCGCC
64 ATTAGCTTGACCCTTAC-AGAAGCACTAGCACC
*
1001239 ACCA-TATCCACCAACATTGGCTT
1 ACCACT-TCCACCAACATTAGCTT
1001262 CACTTTTTCC
Statistics
Matches: 622, Mismatches: 141, Indels: 68
0.75 0.17 0.08
Matches are distributed among these distances:
95 20 0.03
96 515 0.83
97 12 0.02
98 1 0.00
99 5 0.01
100 1 0.00
101 3 0.00
102 59 0.09
103 6 0.01
ACGTcount: A:0.26, C:0.37, G:0.14, T:0.23
Consensus pattern (95 bp):
ACCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACTGGCACCGCCACTTCCACCTACAT
TAGCTTGACCCTTACAGAAGCACTAGCACC
Found at i:1001133 original size:144 final size:144
Alignment explanation
Indices: 1000889--1001154 Score: 322
Period size: 144 Copynumber: 1.8 Consensus size: 144
1000879 ACCCTTCCCG
* * * * * *
1000889 GAAGCACTGGCACCACCACTTCCACCTACATTAGCTTGACCACTTCCAGAAGCACCGGCACTGGC
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACCAGCACCGCC
* * * *
1000954 ACCTCCACCAATATTAGCTTGACCACTGCCAGAAGCACTTGCACCACCACT-TCCACCTACATTG
66 AACTCCACCAATATTAGCTTCACCACTGACAGAAGCACTAGCACCACCA-TGTCCACCTACATTG
1001018 GCTTGACTACTACTA
130 GCTTGACTACTACTA
** *
1001033 GAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACTAGCACCGCC
1 GAAGCACTAGCACCACCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACCAGCACCGCC
* ** * *
1001098 AATTCCACCGCTTTTAGCTTCACC-CTTAGAC-GAAGCACTAGCCCCACCATGTCCACC
66 AACTCCACCAATATTAGCTTCACCAC-T-GACAGAAGCACTAGCACCACCATGTCCACC
1001155 AACGTTAGCT
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
143 2 0.02
144 97 0.96
145 2 0.02
ACGTcount: A:0.27, C:0.38, G:0.14, T:0.20
Consensus pattern (144 bp):
GAAGCACTAGCACCACCACTTCCACCAACATTAGCTTGACCACTACCAGAAGCACCAGCACCGCC
AACTCCACCAATATTAGCTTCACCACTGACAGAAGCACTAGCACCACCATGTCCACCTACATTGG
CTTGACTACTACTA
Found at i:1001289 original size:48 final size:48
Alignment explanation
Indices: 1001130--1001264 Score: 126
Period size: 48 Copynumber: 2.8 Consensus size: 48
1001120 CCCTTAGACG
* * ** * * * * * *
1001130 AAGCACTAGCCCCACCATGTCCACCAACGTTAGCTTGATCATTACCAG
1 AAGCACTAGCGCCACCATATCCACCAACACTGGCTTCACCCTTGCCAA
* * * * *
1001178 AGGCACTGGCGCCACTATGTCCACCAACACTGGCTTCACCCTTGCTAA
1 AAGCACTAGCGCCACCATATCCACCAACACTGGCTTCACCCTTGCCAA
*
1001226 AAGCACTAGCGCCACCATATCCACCAACATTGGCTTCAC
1 AAGCACTAGCGCCACCATATCCACCAACACTGGCTTCAC
1001265 TTTTTCCAAC
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.20
Consensus pattern (48 bp):
AAGCACTAGCGCCACCATATCCACCAACACTGGCTTCACCCTTGCCAA
Found at i:1004642 original size:72 final size:72
Alignment explanation
Indices: 1004550--1004702 Score: 225
Period size: 72 Copynumber: 2.1 Consensus size: 72
1004540 TCCACTACCA
* * * * * *
1004550 CCACCACCCGCAGCTTTAGCTTCGGCTTCAGCCTTAGCATGAGCTTGAGCAGAAGCACCAGCGTT
1 CCACCACCAGCAGCTCTAGCTTCAGCTTCAGCCTTAGCACGAGCCTGAGCAGAAGCACCAGCGTC
1004615 TCCACCT
66 TCCACCT
* *
1004622 CCACCAGCAGCAGCTCTAGCTTCAGCTTCAGCCTTAGCACGAGCCTGAGCAGAAGCACCGGCGTC
1 CCACCACCAGCAGCTCTAGCTTCAGCTTCAGCCTTAGCACGAGCCTGAGCAGAAGCACCAGCGTC
*
1004687 TCCACTT
66 TCCACCT
1004694 CCACCACCA
1 CCACCACCA
1004703 ACATTAGGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.22, C:0.39, G:0.20, T:0.19
Consensus pattern (72 bp):
CCACCACCAGCAGCTCTAGCTTCAGCTTCAGCCTTAGCACGAGCCTGAGCAGAAGCACCAGCGTC
TCCACCT
Found at i:1004746 original size:30 final size:30
Alignment explanation
Indices: 1004694--1004752 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
1004684 GTCTCCACTT
** *
1004694 CCACCACCAACATTAGGGTTGCCATCTCCA
1 CCACCACCAACATTAGCATTGCCACCTCCA
1004724 CCACCACCAACATTAGCATTGCCACCTCC
1 CCACCACCAACATTAGCATTGCCACCTCC
1004753 GGCAGCATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.44, G:0.10, T:0.19
Consensus pattern (30 bp):
CCACCACCAACATTAGCATTGCCACCTCCA
Found at i:1006028 original size:23 final size:23
Alignment explanation
Indices: 1006002--1006051 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1005992 GCAGTGGGAG
*
1006002 AAGGAGGTAGGAGATGGCTAGAA
1 AAGGAGGTAGGAGATGACTAGAA
1006025 AAGGAGGTAGGAGATGACTAGAA
1 AAGGAGGTAGGAGATGACTAGAA
1006048 AAGG
1 AAGG
1006052 TATAGGACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.42, T:0.12
Consensus pattern (23 bp):
AAGGAGGTAGGAGATGACTAGAA
Found at i:1012842 original size:20 final size:21
Alignment explanation
Indices: 1012819--1012859 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1012809 CTTTAATTTT
* *
1012819 TGTTTTTTAAATTTAA-AAAA
1 TGTTGTTTAAAATTAATAAAA
1012839 TGTTGTTTAAAATTAATAAAA
1 TGTTGTTTAAAATTAATAAAA
1012860 AAAAGTGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (21 bp):
TGTTGTTTAAAATTAATAAAA
Found at i:1025154 original size:28 final size:28
Alignment explanation
Indices: 1025123--1025176 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
1025113 TCATGGACCT
*
1025123 CAACTCCATCAATGCAAATGAGAGCCGA
1 CAACTCCATCAATGCAAAAGAGAGCCGA
1025151 CAACTCCATCAATGCAAAAGAGAGCC
1 CAACTCCATCAATGCAAAAGAGAGCC
1025177 CACTTATTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.30, G:0.17, T:0.13
Consensus pattern (28 bp):
CAACTCCATCAATGCAAAAGAGAGCCGA
Found at i:1026188 original size:22 final size:22
Alignment explanation
Indices: 1026147--1026214 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
1026137 CTCGTATAAA
1026147 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
1026170 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1026192 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1026214 T
1 T
1026215 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 33 0.73
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1026473 original size:30 final size:30
Alignment explanation
Indices: 1026428--1026486 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
1026418 ATCGCGTAGT
* *
1026428 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
1026458 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
1026487 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:1026999 original size:66 final size:67
Alignment explanation
Indices: 1026853--1027024 Score: 222
Period size: 67 Copynumber: 2.6 Consensus size: 67
1026843 TTTTTCTCAT
* * *
1026853 GGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGAT
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
1026918 GAG
65 GAG
* * * *
1026921 GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTTG
1 GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATG
1026985 AG
66 AG
* *
1026987 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
1027025 AACCCTGAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 6 0.06
66 19 0.20
67 57 0.61
68 11 0.12
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.28
Consensus pattern (67 bp):
GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATG
AG
Found at i:1033076 original size:22 final size:22
Alignment explanation
Indices: 1033035--1033101 Score: 118
Period size: 22 Copynumber: 3.0 Consensus size: 22
1033025 CTCGTATAAA
1033035 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
1033058 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1033080 TGCACCGAAGTG-CCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1033101 T
1 T
1033102 ATGTCCATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 10 0.23
22 22 0.50
23 12 0.27
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1033348 original size:30 final size:30
Alignment explanation
Indices: 1033303--1033372 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
1033293 CCGTAGTTCA
* * * *
1033303 TATCACGTAGTCATATTATTTTCATACCTT
1 TATCACATAGACATATCATTTACATACCTT
1033333 TATCACATAGACATATCATTTACATACCTT
1 TATCACATAGACATATCATTTACATACCTT
1033363 TATCACATAG
1 TATCACATAG
1033373 CTCATATAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (30 bp):
TATCACATAGACATATCATTTACATACCTT
Found at i:1033769 original size:19 final size:20
Alignment explanation
Indices: 1033732--1033769 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1033722 CTTTTTCTCA
*
1033732 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
1033752 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1033770 TCAAGCAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:1033856 original size:66 final size:66
Alignment explanation
Indices: 1033733--1033881 Score: 228
Period size: 66 Copynumber: 2.3 Consensus size: 66
1033723 TTTTTCTCAT
* *
1033733 GGGGGAATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGAT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCAT-TACGAT
1033798 GA
65 GA
* * * *
1033800 GGGGGTATCGGTTCCCCCCTGGGGGTA-CGATTCCCCTCTAGCATTCTGGAAATTCATTTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATG
1033864 A
66 A
1033865 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1033882 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
65 23 0.30
66 27 0.36
67 26 0.34
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATG
A
Found at i:1033892 original size:66 final size:67
Alignment explanation
Indices: 1033733--1033903 Score: 222
Period size: 67 Copynumber: 2.6 Consensus size: 67
1033723 TTTTTCTCAT
* * *
1033733 GGGGGAATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGAT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
1033798 GA
66 GA
* * * *
1033800 GGGGGTATCGGTTCCCCCCTGGGGGTA-CGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
1033863 GA
66 GA
* *
1033865 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
1033904 AACCCAGAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
64 6 0.06
65 19 0.20
66 32 0.34
67 36 0.39
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:1040148 original size:14 final size:15
Alignment explanation
Indices: 1040129--1040161 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1040119 TAACTCTATC
1040129 TTTATG-ACACATTT
1 TTTATGAACACATTT
1040143 TTTATGTAACACATTT
1 TTTATG-AACACATTT
1040159 TTT
1 TTT
1040162 TCTGTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
16 11 0.65
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (15 bp):
TTTATGAACACATTT
Found at i:1040711 original size:17 final size:17
Alignment explanation
Indices: 1040689--1040721 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1040679 GTCAAATTAA
1040689 TAAAATAAAAGATTTAT
1 TAAAATAAAAGATTTAT
*
1040706 TAAAATAATAGATTTA
1 TAAAATAAAAGATTTA
1040722 CTAATCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAAAATAAAAGATTTAT
Found at i:1056653 original size:15 final size:15
Alignment explanation
Indices: 1056625--1056667 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
1056615 AAATAACATT
*
1056625 TTTAAATATTTATTA
1 TTTAAATATATATTA
*
1056640 TTTAAATCTATATTA
1 TTTAAATATATATTA
* *
1056655 CTTATATATATAT
1 TTTAAATATATAT
1056668 ATTACATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAATATATATTA
Found at i:1057960 original size:3 final size:3
Alignment explanation
Indices: 1057952--1057978 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1057942 TAATGATCAA
1057952 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1057979 TGAAGGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1058851 original size:16 final size:16
Alignment explanation
Indices: 1058816--1058853 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1058806 TTATTTTATT
* *
1058816 ATGTTTCTTAATGTAT
1 ATGTTTCTTAATGGAA
1058832 ATGTTTCTTAATGGAA
1 ATGTTTCTTAATGGAA
1058848 ATGTTT
1 ATGTTT
1058854 TTTTTATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (16 bp):
ATGTTTCTTAATGGAA
Found at i:1068692 original size:20 final size:20
Alignment explanation
Indices: 1068667--1068705 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1068657 CTGAAAATCA
1068667 AGTAGCATTC-TAATGAGCCG
1 AGTAGCATTCGT-ATGAGCCG
1068687 AGTAGCATTCGTATGAGCC
1 AGTAGCATTCGTATGAGCC
1068706 TTCACCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
AGTAGCATTCGTATGAGCCG
Found at i:1074337 original size:9 final size:9
Alignment explanation
Indices: 1074323--1074347 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1074313 ATTGAATCCC
1074323 GGATTTTCG
1 GGATTTTCG
1074332 GGATTTTCG
1 GGATTTTCG
1074341 GGATTTT
1 GGATTTT
1074348 TTATTTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.32, T:0.48
Consensus pattern (9 bp):
GGATTTTCG
Found at i:1074735 original size:9 final size:9
Alignment explanation
Indices: 1074721--1074745 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1074711 ATTGAATCCC
1074721 GGATTTTCG
1 GGATTTTCG
1074730 GGATTTTCG
1 GGATTTTCG
1074739 GGATTTT
1 GGATTTT
1074746 TTATTTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.32, T:0.48
Consensus pattern (9 bp):
GGATTTTCG
Found at i:1075044 original size:398 final size:398
Alignment explanation
Indices: 1074308--1075107 Score: 1564
Period size: 398 Copynumber: 2.0 Consensus size: 398
1074298 TGTTGATTTA
1074308 GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
1 GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
1074373 TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCACTGTTGACTGCTTGAGGGA
66 TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCACTGTTGACTGCTTGAGGGA
*
1074438 TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAATTGGACCTCACTG
131 TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAACTGGACCTCACTG
*
1074503 GTGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACGACGGCTG
196 GCGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACGACGGCTG
1074568 GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
261 GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
1074633 ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTAC
326 ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTAC
1074698 TGAGTGAT
391 TGAGTGAT
1074706 GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
1 GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
1074771 TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCACTGTTGACTGCTTGAGGGA
66 TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCACTGTTGACTGCTTGAGGGA
1074836 TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAACTGGACCTCACTG
131 TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAACTGGACCTCACTG
*
1074901 GCGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACGACGGTTG
196 GCGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACGACGGCTG
1074966 GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
261 GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
*
1075031 ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTGC
326 ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTAC
1075096 TGAGTGAT
391 TGAGTGAT
1075104 GGGT
1 GGGT
1075108 ATGGGTTGGC
Statistics
Matches: 398, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
398 398 1.00
ACGTcount: A:0.17, C:0.16, G:0.32, T:0.35
Consensus pattern (398 bp):
GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCACTGTTGACTGCTTGAGGGA
TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAACTGGACCTCACTG
GCGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACGACGGCTG
GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTAC
TGAGTGAT
Found at i:1075217 original size:20 final size:19
Alignment explanation
Indices: 1075186--1075224 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1075176 ATAAACATAT
*
1075186 TAATAAAAAATAATGATAA
1 TAATAAAAAATAACGATAA
1075205 TAATAATAAAATAACGATAA
1 TAATAA-AAAATAACGATAA
1075225 AAAACCCGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (19 bp):
TAATAAAAAATAACGATAA
Found at i:1075466 original size:40 final size:41
Alignment explanation
Indices: 1075417--1075617 Score: 174
Period size: 40 Copynumber: 4.8 Consensus size: 41
1075407 CGTCTAAAGG
1075417 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGGA
* * * *
1075457 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG--ATCT---GGGGA
* * * * * ** *
1075503 TAACATGGTTCCTACGTGACGAGGACG-GCTGGTTATCTAAGGT
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGG--ATCTGGGGA
1075546 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGGA
* * *
1075586 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG
1075618 CCATCTAAAG
Statistics
Matches: 125, Mismatches: 28, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
40 63 0.50
42 1 0.01
43 29 0.23
46 31 0.25
47 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (41 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGGA
Found at i:1075616 original size:129 final size:128
Alignment explanation
Indices: 1075413--1075669 Score: 478
Period size: 129 Copynumber: 2.0 Consensus size: 128
1075403 GGGTCGTCTA
1075413 AAGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATG
1 AAGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATG
* *
1075478 AAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCCTACGTGACGAGGACGGCTGGTTATCT
66 AAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAAGAGGACGGCTGGTTATCT
1075541 AAGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGAT
1 AAGG-TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGAT
*
1075606 GAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAAGAGGATGGCTGGTTATCT
65 GAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAAGAGGACGGCTGGTTATCT
1075670 CTAGGATAAT
Statistics
Matches: 125, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
128 4 0.03
129 121 0.97
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (128 bp):
AAGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGCTCATACGTGATG
AAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAAGAGGACGGCTGGTTATCT
Found at i:1076492 original size:40 final size:40
Alignment explanation
Indices: 1076448--1076527 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
1076438 GTTTTAATAG
*
1076448 AAACGATATCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
*
1076488 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1076528 CGAGAGACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (40 bp):
AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
Found at i:1076675 original size:67 final size:67
Alignment explanation
Indices: 1076529--1077132 Score: 743
Period size: 67 Copynumber: 8.9 Consensus size: 67
1076519 AAGTTGTCTC
* *
1076529 GAGAGACAAAATTTTGTTT-CAAAGGAAACAAACTCAGAGA-TTTT-TTTCAAAAGAAATTGTCT
1 GAGAGACAAAATTTTGTTTCCAAA-GAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATC-
1076591 TTAA
64 TTAA
*
1076595 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1076660 AA
66 AA
*
1076662 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1076727 AA
66 AA
1076729 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1076794 AA
66 AA
* *
1076796 GAGAGACCAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1076861 AA
66 AA
* ** *
1076863 GAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACAATCTC
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1076928 AA
66 AA
** * * * *** **** **
1076930 -AGATTTTTTTCACAAA-ATTGTCT-CAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATTTTT
1 GAGA-----GACA-AAATTTTGTTTCCAA-AGAAACAA-AC----TCAAAGA-TTTTTG-TTTCA
* * *
1076992 CACGAAATTGTCTTAA
52 AAAGAAATTATCTTAA
* * *
1077008 GAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1077073 AA
66 AA
*
1077075 GAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
1077133 CAATCTCAAA
Statistics
Matches: 466, Mismatches: 52, Indels: 39
0.84 0.09 0.07
Matches are distributed among these distances:
66 37 0.08
67 345 0.74
68 17 0.04
69 4 0.01
70 3 0.01
71 13 0.03
72 5 0.01
73 5 0.01
74 13 0.03
75 2 0.00
76 4 0.01
77 2 0.00
78 13 0.03
79 3 0.01
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (67 bp):
GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
AA
Found at i:1076833 original size:201 final size:199
Alignment explanation
Indices: 1076529--1077141 Score: 819
Period size: 212 Copynumber: 3.0 Consensus size: 199
1076519 AAGTTGTCTC
*
1076529 GAGAGACAAAATTTTGTTT-CAAAGGAAACAAACTCAGAGATTTTTTTCAAAAGAAATTGTCTTT
1 GAGAGACAAAATTTTGTTTCCAAA-GAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTC-TT
* *
1076593 AAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATC
64 AAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATC
* *
1076658 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTA
129 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACAA
*
1076723 TCTTAA
194 TCTCAA
*
1076729 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
1 GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA-TTTT-TTTCAAAAGAAATTGTCTT
*
1076794 AAGAGAGACCAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATC
64 AAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATC
1076859 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACAA
129 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACAA
1076924 TCTCAA
194 TCTCAA
* * * *
1076930 -AGATTTTTTTCACAAAA--TTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGA--TTT
1 GAGA-------GACAAAATTTTGTTTCCA-A-AG---AAA--------CAAACTCAAAGATTTTT
* * *
1076990 TTC--ACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTT
46 TTCAAAAGAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
1077053 GTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTT
111 GTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTT
1077118 TTGTTTCAAAAGAAACAATCTCAA
176 TTGTTTCAAAAGAAACAATCTCAA
1077142 AGATTTTTTT
Statistics
Matches: 373, Mismatches: 17, Indels: 34
0.88 0.04 0.08
Matches are distributed among these distances:
200 37 0.10
201 140 0.38
202 16 0.04
205 7 0.02
206 1 0.00
207 8 0.02
210 3 0.01
212 144 0.39
214 4 0.01
215 2 0.01
218 11 0.03
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (199 bp):
GAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTAA
GAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT
AAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACAATC
TCAA
Found at i:1076946 original size:30 final size:29
Alignment explanation
Indices: 1076869--1076946 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
1076859 TTAAGAGAGA
1076869 CAAA-ATTTTGTTTCC-AAAGAAACAGACT
1 CAAAGATTTT-TTTCCAAAAGAAACAGACT
*
1076897 CAAAGATTTTTGTTTCAAAAGAAACA-ATCT
1 CAAAGATTTTT-TTCCAAAAGAAACAGA-CT
1076927 CAAAGATTTTTTTCACAAAA
1 CAAAGATTTTTTTC-CAAAA
1076947 TTGTCTCAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 5 0.12
29 11 0.26
30 27 0.63
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (29 bp):
CAAAGATTTTTTTCCAAAAGAAACAGACT
Found at i:1077000 original size:52 final size:53
Alignment explanation
Indices: 1076925--1077028 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 53
1076915 AAGAAACAAT
1076925 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
* *
1076979 CTCAAAGA-TTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1077029 AAAGAAACAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 40 0.83
54 8 0.17
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:1077054 original size:30 final size:30
Alignment explanation
Indices: 1077020--1077149 Score: 122
Period size: 30 Copynumber: 4.1 Consensus size: 30
1077010 GAGACAAAAC
1077020 TTTGTTTCAAAAGAAACAGACTCAAAGATT
1 TTTGTTTCAAAAGAAACAGACTCAAAGATT
**
1077050 TTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAA-A-T
1 TTTGTTTCAAAAG-AA--A-C-----AGACTCAAAGATT
*
1077087 TTTGTTTCCAAAGAAACAGACTCAAAGATT
1 TTTGTTTCAAAAGAAACAGACTCAAAGATT
1077117 TTTGTTTCAAAAGAAACA-ATCTCAAAGATT
1 TTTGTTTCAAAAGAAACAGA-CTCAAAGATT
1077147 TTT
1 TTT
1077150 TTCACAAAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 24
0.73 0.05 0.21
Matches are distributed among these distances:
28 7 0.09
29 2 0.02
30 44 0.54
31 2 0.02
33 2 0.02
34 2 0.02
36 2 0.02
37 13 0.16
38 1 0.01
39 7 0.09
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (30 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGATT
Found at i:1077117 original size:29 final size:29
Alignment explanation
Indices: 1077081--1077157 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
1077071 TTAAGAGAGA
1077081 CAAA-ATTTTGTTTCCAAAGAAACAGA-CT
1 CAAAGATTTTGTTTCCAAAGAAACA-ATCT
*
1077109 CAAAGATTTTTGTTTCAAAAGAAACAATCT
1 CAAAGA-TTTTGTTTCCAAAGAAACAATCT
1077139 CAAAGATTTT-TTTCACAAA
1 CAAAGATTTTGTTTC-CAAA
1077158 ATTGTCTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 8 0.19
29 9 0.21
30 26 0.60
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (29 bp):
CAAAGATTTTGTTTCCAAAGAAACAATCT
Found at i:1077157 original size:212 final size:212
Alignment explanation
Indices: 1076783--1077277 Score: 936
Period size: 212 Copynumber: 2.3 Consensus size: 212
1076773 TGTTTCAAAA
* *
1076783 GAAATTATCTTAAGAGAGACCAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1 GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1076848 AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
66 AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
1076913 AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
131 AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
1076978 ACTCAAAGATTTTTCAC
196 ACTCAAAGATTTTTCAC
* *
1076995 GAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1 GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1077060 AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
66 AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
1077125 AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
131 AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
1077190 ACTCAAAGATTTTTCAC
196 ACTCAAAGATTTTTCAC
* *
1077207 GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAATAGACTCAAAGATATTTGTTTCAA
1 GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1077272 AAGAAA
66 AAGAAA
1077278 CAACTCAAAG
Statistics
Matches: 275, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
212 275 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (212 bp):
GAAATTGTCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
AAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTC
AAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
ACTCAAAGATTTTTCAC
Found at i:1077212 original size:52 final size:53
Alignment explanation
Indices: 1077137--1077239 Score: 163
Period size: 52 Copynumber: 1.9 Consensus size: 53
1077127 AAGAAACAAT
1077137 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
* * *
1077191 CTCAAAGA-TTTTTCACGAAATTGTCTTAAGAGAGACAAAATTTTGTTTC
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTC
1077240 CAAAGAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 38 0.83
54 8 0.17
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:1077266 original size:30 final size:29
Alignment explanation
Indices: 1077232--1077386 Score: 126
Period size: 29 Copynumber: 5.3 Consensus size: 29
1077222 GAGACAAAAT
* *
1077232 TTTGTTTCCAAAGAAATAGACTCAAAGATA
1 TTTGTTTCAAAAGAAACA-ACTCAAAGATA
1077262 TTTGTTTCAAAAGAAACAACTCAAAGAT-
1 TTTGTTTCAAAAGAAACAACTCAAAGATA
*
1077290 TTT-TATTCAAAAGGAACAGACTCCAAA-AT-
1 TTTGT-TTCAAAAGAAACA-ACT-CAAAGATA
*
1077319 TTT-TATTCAAAAGGAACAAACTCAAAGAT-
1 TTTGT-TTCAAAAGAAAC-AACTCAAAGATA
* * *
1077348 TTTTTTTCAAGAGGAACAAACTCAAAGAT-
1 TTTGTTTCAAAAGAAAC-AACTCAAAGATA
*
1077377 TTTTTTTCAA
1 TTTGTTTCAA
1077387 GAAATTGTCT
Statistics
Matches: 115, Mismatches: 4, Indels: 13
0.87 0.03 0.10
Matches are distributed among these distances:
27 1 0.01
28 19 0.17
29 73 0.63
30 22 0.19
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAACTCAAAGATA
Found at i:1077388 original size:29 final size:29
Alignment explanation
Indices: 1077251--1077386 Score: 186
Period size: 29 Copynumber: 4.7 Consensus size: 29
1077241 AAAGAAATAG
* *
1077251 ACTCAAAGATATTTGTTTCAAAAGAAAC-A
1 ACTCAAAGAT-TTTTTTTCAAAAGGAACAA
* *
1077280 ACTCAAAGATTTTTATTCAAAAGGAACAG
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
*
1077309 ACTCCAAA-ATTTTTATTCAAAAGGAACAA
1 ACT-CAAAGATTTTTTTTCAAAAGGAACAA
*
1077338 ACTCAAAGATTTTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGGAACAA
1077367 ACTCAAAGATTTTTTTTCAA
1 ACTCAAAGATTTTTTTTCAA
1077387 GAAATTGTCT
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
28 18 0.19
29 75 0.77
30 4 0.04
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (29 bp):
ACTCAAAGATTTTTTTTCAAAAGGAACAA
Found at i:1077677 original size:34 final size:36
Alignment explanation
Indices: 1077630--1077721 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
1077620 AAAAAATGAT
*
1077630 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGATATA
1 GTCTCAAGCGAGACAAAATTTGTCTTTAGAGAAATA
** * *
1077664 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTCTTTAGAGAAATA
*
1077700 GTCTCAAGCGAGACAAAGTTTG
1 GTCTCAAGCGAGACAAAATTTG
1077722 AGAAAACGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 20 0.42
35 4 0.08
36 24 0.50
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTCTTTAGAGAAATA
Found at i:1078061 original size:105 final size:100
Alignment explanation
Indices: 1077876--1078110 Score: 260
Period size: 105 Copynumber: 2.3 Consensus size: 100
1077866 AATAAATTGC
*
1077876 CTCAAGCGAGACAAAATTTGTTTTTGAGGAAACGATCTCAAGTGAGATCAACTTTGTTTAATGTG
1 CTCAAGCGAGAC-AAATTTG-TTTTGAAGAAACGATCTCAAGTGAGATCAACTTTGTTTAATGTG
* * *
1077941 AAACAAATTCGAAATTTGAATCTCAAAGGGAAAAGGT
64 AAACAAATTCAAAATTTGAATCTAAAAGGAAAAAGGT
* * *
1077978 CTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAGAATCT-AAGGTGAGATTAATTTTGTTT-T
1 CTCAAGCGAGAC-AAATTTGTTTTG-AAGAAAC--G-ATCTCAA-GTGAGATCAACTTTGTTTAA
* * *
1078041 TAGTGAATCAAATTCAAAATTTGTATCTAAAAGGAAAAATGT
60 T-GTGAAACAAATTCAAAATTTGAATCTAAAAGGAAAAAGGT
*
1078083 CTCAAGCGAAACACAATTTGTTTT-AAGA
1 CTCAAGCGAGACA-AATTTGTTTTGAAGA
1078111 TTCTCAAAAT
Statistics
Matches: 114, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
101 5 0.04
102 25 0.22
103 4 0.04
104 5 0.04
105 75 0.66
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (100 bp):
CTCAAGCGAGACAAATTTGTTTTGAAGAAACGATCTCAAGTGAGATCAACTTTGTTTAATGTGAA
ACAAATTCAAAATTTGAATCTAAAAGGAAAAAGGT
Found at i:1082378 original size:31 final size:32
Alignment explanation
Indices: 1082322--1082383 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1082312 TGACAAAATG
1082322 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1082354 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
1082384 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:1086076 original size:9 final size:9
Alignment explanation
Indices: 1086062--1086086 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1086052 ATTGAATCCC
1086062 GGATTTTCG
1 GGATTTTCG
1086071 GGATTTTCG
1 GGATTTTCG
1086080 GGATTTT
1 GGATTTT
1086087 TTATTTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.32, T:0.48
Consensus pattern (9 bp):
GGATTTTCG
Found at i:1086474 original size:9 final size:9
Alignment explanation
Indices: 1086460--1086484 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1086450 ATTGAATCCC
1086460 GGATTTTCG
1 GGATTTTCG
1086469 GGATTTTCG
1 GGATTTTCG
1086478 GGATTTT
1 GGATTTT
1086485 TTATTTAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.32, T:0.48
Consensus pattern (9 bp):
GGATTTTCG
Found at i:1086783 original size:398 final size:398
Alignment explanation
Indices: 1086047--1086846 Score: 1582
Period size: 398 Copynumber: 2.0 Consensus size: 398
1086037 TGTTGATTTA
1086047 GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
1 GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
1086112 TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCACTGTTGACTGCTTGAGGGA
66 TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCACTGTTGACTGCTTGAGGGA
1086177 TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAACTGGACCTCACTG
131 TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAACTGGACCTCACTG
*
1086242 GCGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACGACGGCTG
196 GCGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACAACGGCTG
1086307 GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
261 GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
1086372 ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTGC
326 ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTGC
1086437 TGAGTGAT
391 TGAGTGAT
1086445 GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
1 GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
*
1086510 TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCATTGTTGACTGCTTGAGGGA
66 TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCACTGTTGACTGCTTGAGGGA
1086575 TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAACTGGACCTCACTG
131 TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAACTGGACCTCACTG
1086640 GCGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACAACGGCTG
196 GCGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACAACGGCTG
1086705 GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
261 GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
1086770 ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTGC
326 ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTGC
1086835 TGAGTGAT
391 TGAGTGAT
1086843 GGGT
1 GGGT
1086847 ATGGGTTGGC
Statistics
Matches: 400, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
398 400 1.00
ACGTcount: A:0.17, C:0.16, G:0.32, T:0.34
Consensus pattern (398 bp):
GGGTGATTGAATCCCGGATTTTCGGGATTTTCGGGATTTTTTATTTAGATTTATTTTTGTTTTTT
TATTGGGGTTTTTCTCTGATTTGCTGATTGATTTGGTATGTTGTCACTGTTGACTGCTTGAGGGA
TGGGCTCTGATCGGCTCGGGAAGCTTTCGACGATGGCTCGTCGACTGGGAAACTGGACCTCACTG
GCGGCAGTGGCTTGATGGCTGTTGGCTTGAACGGCTACTGGAATGTTGAAGAGGCACAACGGCTG
GATTGGCTTAGGGTTGTGAAACCCTATTTACCATCGATCTGGACCGTTGAATGGGTCCAGATCGA
ATGGTCTATGTTGGTGCGGCGCTGGGATGTTGATACCCTAAGGTTAGGGTTTGCAATCGGGCTGC
TGAGTGAT
Found at i:1086956 original size:20 final size:19
Alignment explanation
Indices: 1086925--1086963 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1086915 ATAAACATAT
*
1086925 TAATAAAAAATAATGATAA
1 TAATAAAAAATAACGATAA
1086944 TAATAATAAAATAACGATAA
1 TAATAA-AAAATAACGATAA
1086964 AAAACCCGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (19 bp):
TAATAAAAAATAACGATAA
Found at i:1091940 original size:23 final size:24
Alignment explanation
Indices: 1091914--1091967 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 24
1091904 GATTTAAATT
* *
1091914 AATTGATCAATAAAACAA-ATATC
1 AATTGATCAAAAAAACAATATACC
** *
1091937 AATTCTTCAAAAAAATAATATACC
1 AATTGATCAAAAAAACAATATACC
1091961 AATTGAT
1 AATTGAT
1091968 TTATTATCCA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.30
Consensus pattern (24 bp):
AATTGATCAAAAAAACAATATACC
Found at i:1097390 original size:122 final size:124
Alignment explanation
Indices: 1097167--1097397 Score: 326
Period size: 122 Copynumber: 1.9 Consensus size: 124
1097157 TCTTCACCTA
* * * * *
1097167 TTGCCAATTGGTGTTAGGTTAGATGCTTAATAACTTTTAATCTATATAAGTGATGCTTAAAGTTG
1 TTGCCAATTCGTGTTAGGTTAAATGCTTAACAACTTTGAATCTATATAAATGATGCTTAAAGTTG
* * *
1097232 GAGGTTGTTTATTGTTCCTGGATTCAATTAGTAAGTCC-TTTGTTTGTATTGGTTTTAT
66 GAGGTTGTTTATTATTCATGGATTCAATTAGCAAGTCCATTTGTTTGTATTGGTTTTAT
*
1097290 TTGCCAATTCGTTTTAGGTTAAATGCTT-ACAACTTTGAATCTATA-AATATGATGCTTAAAGTT
1 TTGCCAATTCGTGTTAGGTTAAATGCTTAACAACTTTGAATCTATATAA-ATGATGCTTAAAGTT
*
1097353 GGAGTTTGTTTATTATTCATGGATTCAATCT-GCAAGTCCATTTGT
65 GGAGGTTGTTTATTATTCATGGATTCAAT-TAGCAAGTCCATTTGT
1097398 AATGGTTTGT
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
121 2 0.02
122 62 0.65
123 31 0.33
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (124 bp):
TTGCCAATTCGTGTTAGGTTAAATGCTTAACAACTTTGAATCTATATAAATGATGCTTAAAGTTG
GAGGTTGTTTATTATTCATGGATTCAATTAGCAAGTCCATTTGTTTGTATTGGTTTTAT
Done.