Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008662.1 Hibiscus syriacus cultivar Beakdansim tig00111662_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: 1703488
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:994591 original size:21 final size:21
Alignment explanation
Indices: 994561--994642 Score: 110
Period size: 21 Copynumber: 3.9 Consensus size: 21
994551 TCGAGGGTTC
994561 TACGAGGTCCTTTGGGACATA
1 TACGAGGTCCTTTGGGACATA
*
994582 TACGATGTCCTTTGGGACATA
1 TACGAGGTCCTTTGGGACATA
**
994603 TATAAGGTCCTTTGGGACATA
1 TACGAGGTCCTTTGGGACATA
* * *
994624 TATGAGGTCATTCGGGACA
1 TACGAGGTCCTTTGGGACA
994643 ACTTTTATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (21 bp):
TACGAGGTCCTTTGGGACATA
Found at i:996507 original size:20 final size:22
Alignment explanation
Indices: 996462--996524 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 22
996452 GCATGGGTAG
996462 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
996486 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
996506 TGTATCGATGCACT-TTAAG
1 TGCATCGATGCACTGTTAAG
996525 GGAAAATAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 1 0.03
23 2 0.06
24 13 0.36
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:997358 original size:23 final size:23
Alignment explanation
Indices: 997327--997375 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
997317 GGGTCTATGC
*
997327 GGTCCTTCGGGACATTTCATAGT
1 GGTCATTCGGGACATTTCATAGT
997350 GGTCATTCGGGACATTTCATAGT
1 GGTCATTCGGGACATTTCATAGT
997373 GGT
1 GGT
997376 TCTTCAAGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (23 bp):
GGTCATTCGGGACATTTCATAGT
Found at i:997386 original size:23 final size:23
Alignment explanation
Indices: 997337--997396 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
997327 GGTCCTTCGG
**
997337 GACATTTCATAGTGGTCATTCGG
1 GACATTTCATAGTGGTCATTCAA
997360 GACATTTCATAGTGGTTC-TTCAA
1 GACATTTCATAGTGG-TCATTCAA
997383 GACAAATTTCATAG
1 GAC--ATTTCATAG
997397 CCCCTAGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 21 0.66
24 2 0.06
25 9 0.28
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (23 bp):
GACATTTCATAGTGGTCATTCAA
Found at i:1000785 original size:20 final size:20
Alignment explanation
Indices: 1000728--1000773 Score: 56
Period size: 24 Copynumber: 2.1 Consensus size: 20
1000718 GCATGGGTAG
1000728 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
1000752 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
1000772 TG
1 TG
1000774 TATTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.27
22 1 0.05
23 2 0.09
24 13 0.59
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:1001115 original size:13 final size:13
Alignment explanation
Indices: 1001097--1001137 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1001087 GATATGTTAC
1001097 ATATGTGTTAATG
1 ATATGTGTTAATG
*
1001110 ATATGTGTGAAT-
1 ATATGTGTTAATG
1001122 ATATGT-TTATATG
1 ATATGTGTTA-ATG
1001135 ATA
1 ATA
1001138 CATGTTCCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 2 0.08
12 8 0.33
13 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (13 bp):
ATATGTGTTAATG
Found at i:1001623 original size:23 final size:23
Alignment explanation
Indices: 1001593--1001662 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
1001583 GGGTCTACAC
1001593 GGTCCTTCGGAACATTTCATAGT
1 GGTCCTTCGGAACATTTCATAGT
*
1001616 GGTCCTTCGGGACATTTCATAGT
1 GGTCCTTCGGAACATTTCATAGT
*
1001639 GGTCCTTCAGGACAAATTTCATAG
1 GGTCCTTC-GGA-ACATTTCATAG
1001663 CCTCTAGTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
23 30 0.71
24 2 0.05
25 10 0.24
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (23 bp):
GGTCCTTCGGAACATTTCATAGT
Found at i:1006476 original size:16 final size:16
Alignment explanation
Indices: 1006444--1006477 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1006434 TAAATTTGGC
*
1006444 TGAAAATAAAGCAAAA
1 TGAAAATAAAACAAAA
*
1006460 TGAAAATAAAACGAAA
1 TGAAAATAAAACAAAA
1006476 TG
1 TG
1006478 GGTTGCCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.15, T:0.15
Consensus pattern (16 bp):
TGAAAATAAAACAAAA
Found at i:1009303 original size:17 final size:17
Alignment explanation
Indices: 1009278--1009311 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1009268 AATGAGATAA
*
1009278 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
1009295 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
1009312 TGAGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:1010103 original size:76 final size:76
Alignment explanation
Indices: 1009891--1010115 Score: 227
Period size: 76 Copynumber: 3.1 Consensus size: 76
1009881 TAAAACATCA
* *
1009891 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAC----C-TAAAA-ATAATATTT
1 TAAAACCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAACATAAAATATAATATTT
*
1009949 AAAATAATATTC
65 AAAATAATATCC
* * *
1009961 TAAACCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACA-AAGATAAAATA-T
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C-AAAACATAAAATATAATATT
*
1010024 AAAAATAATATCC
64 TAAAATAATATCC
* * * * * *
1010037 TAAAACTTAATTAAAATATTGAAACCTATTTAAACTAAAGTA-AAAATATAAAATATAATGTTTA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAACATAAAATATAATATTTA
*
1010101 AAATATTATCC
66 AAATAATATCC
1010112 TAAA
1 TAAA
1010116 CTTGACTTTA
Statistics
Matches: 127, Mismatches: 17, Indels: 17
0.79 0.11 0.11
Matches are distributed among these distances:
69 5 0.04
70 34 0.27
71 1 0.01
73 5 0.04
74 8 0.06
75 16 0.13
76 53 0.42
77 5 0.04
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (76 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAACATAAAATATAATATTTA
AAATAATATCC
Found at i:1015051 original size:17 final size:18
Alignment explanation
Indices: 1015029--1015062 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1015019 CCTACTATCC
1015029 CCCTTG-GTATCGATACT
1 CCCTTGAGTATCGATACT
1015046 CCCTTGAGTATCGATAC
1 CCCTTGAGTATCGATAC
1015063 CAAATTAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (18 bp):
CCCTTGAGTATCGATACT
Found at i:1015881 original size:3 final size:3
Alignment explanation
Indices: 1015868--1015950 Score: 104
Period size: 3 Copynumber: 29.3 Consensus size: 3
1015858 CTTACTAACC
*
1015868 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG AAG AAT AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
1015914 AAG -GG AAG AAG AAG -GG AAG AAG AAG -AG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1015951 TAAGAGAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
2 8 0.12
3 61 0.88
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:1015900 original size:11 final size:11
Alignment explanation
Indices: 1015868--1015955 Score: 108
Period size: 11 Copynumber: 8.1 Consensus size: 11
1015858 CTTACTAACC
*
1015868 AAGAAAAGAAG
1 AAGAAGAGAAG
1015879 AAGAAGAAGAAG
1 AAGAAG-AGAAG
1015891 AAGAAGAGAAG
1 AAGAAGAGAAG
*
1015902 AAG-A-AGAAT
1 AAGAAGAGAAG
*
1015911 AAGAAGGGAAG
1 AAGAAGAGAAG
*
1015922 AAGAAGGGAAG
1 AAGAAGAGAAG
1015933 AAGAAGAGAAG
1 AAGAAGAGAAG
*
1015944 AAGAAGATAAG
1 AAGAAGAGAAG
1015955 A
1 A
1015956 GAATGCTGAG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
9 7 0.10
10 2 0.03
11 48 0.71
12 11 0.16
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (11 bp):
AAGAAGAGAAG
Found at i:1017448 original size:17 final size:18
Alignment explanation
Indices: 1017407--1017448 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1017397 CTTCAAAAAC
1017407 CAAT-AAAATTTTTGTCT
1 CAATCAAAATTTTTGTCT
1017424 CAATCAAAATTTTCT-TCT
1 CAATCAAAATTTT-TGTCT
1017442 CAA-CAAA
1 CAATCAAA
1017449 TAACAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (18 bp):
CAATCAAAATTTTTGTCT
Found at i:1018582 original size:24 final size:24
Alignment explanation
Indices: 1018550--1018595 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1018540 ACTAATTGAT
1018550 TGTTGATGAATTTAATCGATAAGG
1 TGTTGATGAATTTAATCGATAAGG
*
1018574 TGTTGATGAATTTAATCTATAA
1 TGTTGATGAATTTAATCGATAA
1018596 CGTGATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (24 bp):
TGTTGATGAATTTAATCGATAAGG
Found at i:1019286 original size:31 final size:31
Alignment explanation
Indices: 1019251--1019315 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
1019241 TCAAAATGCA
1019251 TAAGATATGT-TCACTTTCGCTTTTATTTAAT
1 TAAGATAT-TATCACTTTCGCTTTTATTTAAT
* * *
1019282 TAAGATATTATCACTTTTGTTTTTATTTATT
1 TAAGATATTATCACTTTCGCTTTTATTTAAT
1019313 TAA
1 TAA
1019316 AATGTGGTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.55
Consensus pattern (31 bp):
TAAGATATTATCACTTTCGCTTTTATTTAAT
Found at i:1020657 original size:17 final size:17
Alignment explanation
Indices: 1020637--1020669 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1020627 ATATTTATTT
1020637 ATAT-AAAATATAATATG
1 ATATGAAAA-ATAATATG
1020654 ATATGAAAAATAATAT
1 ATATGAAAAATAATAT
1020670 TGTGATCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
ATATGAAAAATAATATG
Found at i:1020785 original size:17 final size:18
Alignment explanation
Indices: 1020746--1020783 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1020736 TTAAATATTA
*
1020746 TTTTA-AATAATTACATT
1 TTTTACAATAATAACATT
1020763 TTTTACAATAATAACATT
1 TTTTACAATAATAACATT
1020781 TTT
1 TTT
1020784 ACCTCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTACAATAATAACATT
Found at i:1022687 original size:32 final size:32
Alignment explanation
Indices: 1022646--1022706 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
1022636 GCACCGAAAG
1022646 TTTCTTTGGCCATTTGTTAGCTGGCTTTTCAA
1 TTTCTTTGGCCATTTGTTAGCTGGCTTTTCAA
*
1022678 TTTCTTTGGCCATTTGTTGGCTGGCTTTT
1 TTTCTTTGGCCATTTGTTAGCTGGCTTTT
1022707 AACAATCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.18, G:0.21, T:0.52
Consensus pattern (32 bp):
TTTCTTTGGCCATTTGTTAGCTGGCTTTTCAA
Found at i:1027344 original size:32 final size:32
Alignment explanation
Indices: 1027303--1027363 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
1027293 GCACCGAAAG
1027303 TTTCTTTGGCCATTTGTTGGCTGGCTTTTTAA
1 TTTCTTTGGCCATTTGTTGGCTGGCTTTTTAA
1027335 TTTCTTTGGCCATTTGTTGGCTGGCTTTT
1 TTTCTTTGGCCATTTGTTGGCTGGCTTTT
1027364 CAACAGGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.07, C:0.16, G:0.23, T:0.54
Consensus pattern (32 bp):
TTTCTTTGGCCATTTGTTGGCTGGCTTTTTAA
Found at i:1028034 original size:2 final size:2
Alignment explanation
Indices: 1028027--1028072 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1028017 ACAGCTAAAC
1028027 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
1028069 AT AT
1 AT AT
1028073 TCTCAATATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1028316 original size:7 final size:7
Alignment explanation
Indices: 1028304--1028328 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1028294 TTTTCTCATA
1028304 TAGGTGT
1 TAGGTGT
1028311 TAGGTGT
1 TAGGTGT
1028318 TAGGTGT
1 TAGGTGT
1028325 TAGG
1 TAGG
1028329 GTGATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (7 bp):
TAGGTGT
Found at i:1029423 original size:12 final size:12
Alignment explanation
Indices: 1029386--1029439 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
1029376 CTACCAAAAA
1029386 TATTATTATA-T
1 TATTATTATATT
*
1029397 TA-TA-AATATT
1 TATTATTATATT
* *
1029407 AATTATTGTATT
1 TATTATTATATT
1029419 TATTATTATATAT
1 TATTATTATAT-T
1029432 TATTATTA
1 TATTATTA
1029440 AATATTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
9 3 0.09
10 4 0.12
11 4 0.12
12 13 0.39
13 9 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATATT
Found at i:1029451 original size:12 final size:12
Alignment explanation
Indices: 1029421--1029459 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1029411 ATTGTATTTA
*
1029421 TTATTATATATT
1 TTATTAAATATT
1029433 ATTATTAAATATT
1 -TTATTAAATATT
*
1029446 TTATTACATATT
1 TTATTAAATATT
1029458 TT
1 TT
1029460 GCAGGCCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTAAATATT
Found at i:1031842 original size:8 final size:7
Alignment explanation
Indices: 1031829--1031942 Score: 56
Period size: 8 Copynumber: 15.6 Consensus size: 7
1031819 AGAAAGATGT
1031829 AATAAATA
1 AATAAA-A
1031837 AATAAAA
1 AATAAAA
*
1031844 AAT-ATA
1 AATAAAA
* *
1031850 TATACAA
1 AATAAAA
1031857 AATAATAA
1 AATAA-AA
1031865 AATAAAA
1 AATAAAA
* *
1031872 TAGTAAAT
1 -AATAAAA
*
1031880 CA-AAAA
1 AATAAAA
1031886 AATAATAA
1 AATAA-AA
1031894 AATAAAA
1 AATAAAA
1031901 AACTAAAA
1 AA-TAAAA
*
1031909 TAGTAAATCA
1 -AATAAA--A
1031919 AA-AAAA
1 AATAAAA
1031925 TAATAAAA
1 -AATAAAA
1031933 AA-AAAA
1 AATAAAA
1031939 AATA
1 AATA
1031943 TATATATATA
Statistics
Matches: 80, Mismatches: 14, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
6 15 0.19
7 21 0.26
8 41 0.51
9 2 0.03
10 1 0.01
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (7 bp):
AATAAAA
Found at i:1031861 original size:24 final size:26
Alignment explanation
Indices: 1031832--1031897 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
1031822 AAGATGTAAT
*
1031832 AAATAAATAAAAAATATA-TATA-CA
1 AAATAAATAAAAAATATAGTAAATCA
*
1031856 AAAT-AATAAAATAAAATAGTAAATCA
1 AAATAAATAAAA-AATATAGTAAATCA
1031882 AAA-AAATAATAAAATA
1 AAATAAATAA-AAAATA
1031898 AAAAACTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 7 0.21
24 9 0.26
25 3 0.09
26 13 0.38
27 2 0.06
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (26 bp):
AAATAAATAAAAAATATAGTAAATCA
Found at i:1031871 original size:13 final size:13
Alignment explanation
Indices: 1031855--1031942 Score: 56
Period size: 13 Copynumber: 6.7 Consensus size: 13
1031845 ATATATATAC
1031855 AAAATAATAAAAT
1 AAAATAATAAAAT
* *
1031868 AAAATAGTAAATCAAA
1 AAAATAAT-AA--AAT
1031884 AAAATAATAAAAT
1 AAAATAATAAAAT
1031897 AAAA-AACTAAAAT
1 AAAATAA-TAAAAT
** *
1031910 AGTA-AATCAAA-
1 AAAATAATAAAAT
*
1031921 AAAATAATAAAAA
1 AAAATAATAAAAT
*
1031934 AAAAAAATA
1 AAAATAATA
1031943 TATATATATA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
11 2 0.03
12 12 0.21
13 31 0.53
14 2 0.03
15 2 0.03
16 9 0.16
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.18
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:1031887 original size:21 final size:21
Alignment explanation
Indices: 1031863--1031927 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
1031853 ACAAAATAAT
1031863 AAAATAAAATAGTAAATCAAA
1 AAAATAAAATAGTAAATCAAA
1031884 AAAAT--AATA--AAAT-AAA
1 AAAATAAAATAGTAAATCAAA
*
1031900 AAACTAAAATAGTAAATCAAA
1 AAAATAAAATAGTAAATCAAA
1031921 AAAATAA
1 AAAATAA
1031928 TAAAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 7 0.19
17 4 0.11
18 4 0.11
19 4 0.11
20 4 0.11
21 14 0.38
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (21 bp):
AAAATAAAATAGTAAATCAAA
Found at i:1031889 original size:16 final size:16
Alignment explanation
Indices: 1031828--1031942 Score: 67
Period size: 16 Copynumber: 7.1 Consensus size: 16
1031818 AAGAAAGATG
*
1031828 TAATAAATAAATAAAA
1 TAATAAATAAAAAAAA
* * *
1031844 -AATATATATACAAAA
1 TAATAAATAAAAAAAA
*
1031859 TAAT--A-AAATAAAA
1 TAATAAATAAAAAAAA
* *
1031872 TAGTAAATCAAAAAAA
1 TAATAAATAAAAAAAA
1031888 TAATAAAATAAAAAACTAAAA
1 TAAT-AAAT--AAAA--AAAA
* *
1031909 TAGTAAATCAAAAAAA
1 TAATAAATAAAAAAAA
*
1031925 TAATAAAAAAAAAAAA
1 TAATAAATAAAAAAAA
1031941 TA
1 TA
1031943 TATATATATA
Statistics
Matches: 75, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
13 9 0.12
14 1 0.01
15 13 0.17
16 31 0.41
17 4 0.05
18 3 0.04
19 3 0.04
20 4 0.05
21 7 0.09
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (16 bp):
TAATAAATAAAAAAAA
Found at i:1031896 original size:37 final size:36
Alignment explanation
Indices: 1031855--1031939 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 36
1031845 ATATATATAC
1031855 AAAATAATAAAATAAAATAGTAAATCAAAAAAATAAT
1 AAAATAA-AAAATAAAATAGTAAATCAAAAAAATAAT
1031892 AAAATAAAAAACTAAAATAGTAAATCAAAAAAATAAT
1 AAAATAAAAAA-TAAAATAGTAAATCAAAAAAATAAT
*
1031929 AAAAAAAAAAA
1 AAAATAAAAAA
1031940 ATATATATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
36 4 0.09
37 42 0.91
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (36 bp):
AAAATAAAAAATAAAATAGTAAATCAAAAAAATAAT
Found at i:1031938 original size:53 final size:54
Alignment explanation
Indices: 1031881--1032006 Score: 129
Period size: 53 Copynumber: 2.4 Consensus size: 54
1031871 ATAGTAAATC
1031881 AAAAAAATAATAAAATA-AAAAACTA-AAATAGTAAATCAAA-AAAATAATA-AAAA
1 AAAAAAATAATAAAATATAAAAA-TATAAAT-GTAAATCAAAGAAAA-AATATAAAA
* * * *
1031934 AAAAAAAT-ATATATATATATATATATAAATGTAAATCAAAGAAAAAATATTAAA
1 AAAAAAATAATA-AAATATAAAAATATAAATGTAAATCAAAGAAAAAATATAAAA
*
1031988 TAAAAAATAATAAAA-ATAA
1 AAAAAAATAATAAAATATAA
1032007 TAAAGAAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
52 3 0.05
53 31 0.52
54 23 0.38
55 3 0.05
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (54 bp):
AAAAAAATAATAAAATATAAAAATATAAATGTAAATCAAAGAAAAAATATAAAA
Found at i:1032022 original size:18 final size:19
Alignment explanation
Indices: 1031999--1032047 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
1031989 AAAAAATAAT
1031999 AAAAATAATAAAGAAAAG-
1 AAAAATAATAAAGAAAAGC
*
1032017 AAAAAT-ATAAGGAAAAGC
1 AAAAATAATAAAGAAAAGC
1032035 AATAATATAATAA
1 AA-AA-ATAATAA
1032048 TAAAATATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.38
18 8 0.31
19 2 0.08
20 2 0.08
21 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.16
Consensus pattern (19 bp):
AAAAATAATAAAGAAAAGC
Found at i:1032023 original size:24 final size:23
Alignment explanation
Indices: 1031976--1032023 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1031966 AAATCAAAGA
* * *
1031976 AAAAATATTAAATAAAAAATAAT
1 AAAAATAATAAAGAAAAAAAAAT
1031999 AAAAATAATAAAGAAAAGAAAAAT
1 AAAAATAATAAAGAAAA-AAAAAT
1032023 A
1 A
1032024 TAAGGAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAAATAATAAAGAAAAAAAAAT
Found at i:1032026 original size:17 final size:18
Alignment explanation
Indices: 1031999--1032044 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1031989 AAAAAATAAT
1031999 AAAAATAATAAAGAAAAG-
1 AAAAAT-ATAAAGAAAAGC
*
1032017 AAAAATATAAGGAAAAGC
1 AAAAATATAAAGAAAAGC
*
1032035 AATAATATAA
1 AAAAATATAA
1032045 TAATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (18 bp):
AAAAATATAAAGAAAAGC
Found at i:1033195 original size:31 final size:31
Alignment explanation
Indices: 1033149--1033269 Score: 102
Period size: 34 Copynumber: 3.7 Consensus size: 31
1033139 TCGAAAATAT
*
1033149 TTTTTAAAACCATATATTATATTTAAAAAAG
1 TTTTTAAAACTATATATTATATTTAAAAAAG
* **
1033180 TTTTCAAAACTATATATTATATTGTTTTCAAAA-
1 TTTTTAAAACTATATATTATA---TTTAAAAAAG
* *
1033213 TGTTTTAAAAATATTATATAAGT-TTTCAAAAAATG
1 T-TTTTAAAACTA-TATATTA-TATTT-AAAAAA-G
1033248 TTTTTAAAACTATATATTATAT
1 TTTTTAAAACTATATATTATAT
1033270 AATTTTCCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
31 19 0.28
32 4 0.06
33 12 0.17
34 26 0.38
35 7 0.10
36 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (31 bp):
TTTTTAAAACTATATATTATATTTAAAAAAG
Found at i:1033231 original size:35 final size:34
Alignment explanation
Indices: 1033174--1033428 Score: 232
Period size: 35 Copynumber: 7.1 Consensus size: 34
1033164 ATTATATTTA
* * *
1033174 AAAAAGTTTTCAAAACTATATATTATATTGTTTTC
1 AAAATGTTTT-AAAAATATATATTATATAGTTTTC
1033209 AAAATGTTTTAAAAATAT-TA-TATA-AGTTTTC
1 AAAATGTTTTAAAAATATATATTATATAGTTTTC
* *
1033240 AAAAAATGTTTTTAAAACTATATATTATATAATTTTCC
1 --AAAATG-TTTTAAAAATATATATTATATAGTTTT-C
* *
1033278 AAAAAAATGTTTTTAAAATTATATATTATATAATTTTTC
1 ---AAAATG-TTTTAAAAATATATATTATAT-AGTTTTC
1033317 AAAAATGTTTTAAAAAACTATATATTATATAAG-TTTC
1 -AAAATGTTTT-AAAAA-TATATATTATAT-AGTTTTC
1033354 AAAATGTTTTAAAAACTATATATTATATAAGTTTTC
1 AAAATGTTTTAAAAA-TATATATTATAT-AGTTTTC
* *
1033390 -AAATGTTTTAAAACTATATAATATATAATGTTTTC
1 AAAATGTTTTAAAAATATATATTATAT-A-GTTTTC
1033425 AAAA
1 AAAA
1033429 CTATATATTA
Statistics
Matches: 195, Mismatches: 11, Indels: 27
0.84 0.05 0.12
Matches are distributed among these distances:
31 6 0.03
32 4 0.02
33 8 0.04
34 31 0.16
35 51 0.26
36 25 0.13
37 20 0.10
38 15 0.08
39 30 0.15
40 5 0.03
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (34 bp):
AAAATGTTTTAAAAATATATATTATATAGTTTTC
Found at i:1033447 original size:24 final size:25
Alignment explanation
Indices: 1033391--1033452 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 25
1033381 TAAGTTTTCA
1033391 AATGTTTTAAAACTATATAATATAT
1 AATGTTTTAAAACTATATAATATAT
*
1033416 AATGTTTTCAAAACTATATATTATAT
1 AATGTTTT-AAAACTATATAATATAT
*
1033442 -ATTTTTTAAAA
1 AATGTTTTAAAA
1033453 ATATTTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 4 0.12
25 14 0.41
26 16 0.47
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (25 bp):
AATGTTTTAAAACTATATAATATAT
Found at i:1033571 original size:2 final size:2
Alignment explanation
Indices: 1033566--1033629 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
1033556 ACACACACAC
1033566 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
1033608 AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
1033630 AAACAAAATA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1034376 original size:84 final size:84
Alignment explanation
Indices: 1034275--1035270 Score: 957
Period size: 84 Copynumber: 12.0 Consensus size: 84
1034265 TCGAGGGTCT
* * * ** **
1034275 TTGGCAGATAGCTCTTCTCTACTTAAAATATGCTGCAAATGATGCACCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
*
1034340 CGAACTCGAAAGTCTTTGG
66 CGAACTCGAAGGTCTTTGG
* * * * *
1034359 TTGGCAGATAACCCTTCTCGACTTATGTTATGCTACAAATGATATGTCTGGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
*
1034424 CGAACTCAAAGGTCTTTTGG
66 CGAACTCGAAGGTC-TTTGG
** * * * * * * * *
1034444 TT-ATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAGGATGCAT-CCTCGAAGCTGAGTGTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG--TGCCTTGGAGCTGAGCGTA
* * *
1034507 ATTGAACTCGAGGGTC--T--
64 GTCGAACTCGAAGGTCTTTGG
* * * *
1034524 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGTCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1034589 CGAACTCGAAGGTCTTTGG
66 CGAACTCGAAGGTCTTTGG
* * * * *
1034608 TTGGCAGATAACCCTTCTCAACTTAAGTTATGTTGCAAATGATATACCTTGGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1034673 CGAACTCGAAGGTCTTTTGG
66 CGAACTCGAAGGTC-TTTGG
* * * * * * * * *
1034693 TT-ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
* *
1034757 TCGAACTTGAGGGTCTTTGG
65 TCGAACTCGAAGGTCTTTGG
* * * * * * *
1034777 AT----GATAGCCCTTCTCGATTTAAGTTATGTTGCAAATGATGTGTCTTAGAGCTGAGTGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1034838 CGAACTCGAAGGTCTTTGG
66 CGAACTCGAAGGTCTTTGG
* * *
1034857 TTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1034922 CGAACTCGAAGGTCTTTTGG
66 CGAACTCGAAGGTC-TTTGG
** * * * * * * * * * * *
1034942 -TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTTCCCTCGAAGTTGAGTGCAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG-TGCCTTGGAGCTGAGCGTAG
* *
1035006 TCAAACTCGAGGGTC--T--
65 TCGAACTCGAAGGTCTTTGG
* * ** * *
1035022 TTAGCAGATAGA-CCTTCTCGACTTAAGCTATATTGTAAATGATGTGCCTTGGAGCTGAGTGTAG
1 TTGGCAGATA-ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* *
1035086 TCGAACTAGAAGGTGTTTGG
65 TCGAACTCGAAGGTCTTTGG
* * * * *
1035106 TTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGTTGAGCATAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1035171 CGAACTCGAAGGTCTTTTGG
66 CGAACTCGAAGGTC-TTTGG
* * * * * * *
1035191 -TGACAGATAACCCTTTTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1035255 CGAACTCGAAGGTCTT
66 CGAACTCGAAGGTCTT
1035271 GACTGACAGA
Statistics
Matches: 730, Mismatches: 157, Indels: 51
0.78 0.17 0.05
Matches are distributed among these distances:
80 85 0.12
81 98 0.13
82 5 0.01
83 3 0.00
84 437 0.60
85 101 0.14
86 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (84 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGG
Found at i:1034649 original size:249 final size:248
Alignment explanation
Indices: 1034196--1035270 Score: 1474
Period size: 249 Copynumber: 4.3 Consensus size: 248
1034186 AAATTTATTG
* * * * * * *
1034196 ACAGATAACCATTCTTGCCTTGAGCTATGCTGTAAATTTGAT-TTGCCTCTAAGCGGACTGTAAT
1 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA--TGATGAT-CCTCGAAGCTGAGTGTAAT
* * * ** *
1034260 CAAACTCGAGGGTCTTTGGCAGATAGCTCTTCTCTACTTAAAATATGCTGCAAATGATGCACCTT
63 CGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTT
* *
1034325 GGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTGGTTGGCAGATAACCCTTCTCGACTTATGTTAT
128 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
* * * *
1034390 GCTACAAATGATATGTCTGGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTT
193 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTT
* * *
1034446 ATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAGGATGCATCCTCGAAGCTGAGTGTAATTG
1 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG-ATCCTCGAAGCTGAGTGTAATCG
*
1034511 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGTCTTGG
65 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTTGG
* *
1034576 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATGT
130 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* *
1034641 TGCAAATGATATACCTTGGAGCTGATCGTAGTCGAACTCGAAGGTCTTTTGGTT
195 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTT
1034695 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG-TGCCCTCGAAGCTGAGTGTAATC
1 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGAT--CCTCGAAGCTGAGTGTAATC
* * * * * *
1034759 GAACTTGAGGGTCTTTGG-ATGATAGCCCTTCTCGATTTAAGTTATGTTGCAAATGATGTGTCTT
64 GAACTCGAGGGTCTTTGGCA-GATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTT
* * *
1034823 AGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTAT
128 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
* *
1034888 GCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTC
193 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTT
* * * *
1034944 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTTCCCTCGAAGTTGAGTGCAATCA
1 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGAT-CCTCGAAGCTGAGTGTAATCG
* * ** * *
1035009 AACTCGAGGGTCTTTAGCAGATAGACCTTCTCGACTTAAGCTATATTGTAAATGATGTGCCTTGG
65 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTTGG
* * * *
1035074 AGCTGAGTGTAGTCGAACTAGAAGGTGTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGC
130 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* * * *
1035139 TGCAAATGATATGCCTTAGAGTTGAGCATAGTCGAACTCGAAGGTCTTTTGGTG
195 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTT
* * * * * *
1035193 ACAGATAACCCTTTTAGCCTTGAGTTATGTTGTAAATGATG-TGCCTTGGAGCTGAGCGTAGTCG
1 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGAT-CCTCGAAGCTGAGTGTAATCG
*
1035257 AACTCGAAGGTCTT
65 AACTCGAGGGTCTT
1035271 GACTGACAGA
Statistics
Matches: 744, Mismatches: 74, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
247 1 0.00
248 32 0.04
249 676 0.91
250 35 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (248 bp):
ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGATCCTCGAAGCTGAGTGTAATCGA
ACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTTGGA
GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
GCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTT
Found at i:1040348 original size:5 final size:5
Alignment explanation
Indices: 1040338--1040387 Score: 61
Period size: 5 Copynumber: 10.4 Consensus size: 5
1040328 GGGAAAGAAC
*
1040338 AATAA AAT-A AAT-A AAT-A AATCAA AATAA AAAAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA
1040386 AA
1 AA
1040388 AGAATAGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 12 0.29
5 25 0.61
6 4 0.10
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:1040503 original size:2 final size:2
Alignment explanation
Indices: 1040496--1040522 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1040486 AGTAATAATA
1040496 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 A
1040523 AAAACACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1040643 original size:2 final size:2
Alignment explanation
Indices: 1040638--1040664 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1040628 AAAAATAAAC
1040638 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1040665 GTAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1040706 original size:13 final size:13
Alignment explanation
Indices: 1040684--1040717 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1040674 AATGCAAATC
*
1040684 AAAGAAAAATATT
1 AAAGAAAAATAAT
*
1040697 AAATAAAAATAAT
1 AAAGAAAAATAAT
1040710 AAAGAAAA
1 AAAGAAAA
1040718 GAAAAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAGAAAAATAAT
Found at i:1040736 original size:31 final size:31
Alignment explanation
Indices: 1040684--1040742 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1040674 AATGCAAATC
*
1040684 AAAGAAAAATATTAAATAAAAATAATAAAGA
1 AAAGAAAAATATTAAATAAAAACAATAAAGA
*
1040715 AAAGAAAAATATTAGGA-AAAAACAATAA
1 AAAGAAAAATATTA-AATAAAAACAATAA
1040743 TATAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (31 bp):
AAAGAAAAATATTAAATAAAAACAATAAAGA
Found at i:1041957 original size:37 final size:35
Alignment explanation
Indices: 1041916--1042233 Score: 246
Period size: 37 Copynumber: 9.1 Consensus size: 35
1041906 TTTTAAAACC
*
1041916 ATATATTATATTTAAAAAGTTTTCAAAACTATATATT
1 ATATATT-T-TTTAAAAAGTTTTAAAAACTATATATT
* * *
1041953 ATATAGTTTTCAAAATGTTTTAAAAA-TAT-TA-T
1 ATATATTTTTTAAAAAGTTTTAAAAACTATATATT
* * * *
1041985 ATA-AGTTTTCAAAAATGTTTTTAAAACTTTATATT
1 ATATATTTTTTAAAAA-GTTTTAAAAACTATATATT
* * *
1042020 ATATAATTTTTCCAAAAATGTTTTTAAAATTATATATT
1 ATAT-ATTTTT-TAAAAA-GTTTTAAAAACTATATATT
1042058 ATATAATTTTTTAAAAATGTTTTAAAAACTATATATT
1 ATAT-ATTTTTTAAAAA-GTTTTAAAAACTATATATT
* * *
1042095 ATATAAATTTTCAAAATGTTTTAAAAACTATATATT
1 ATAT-ATTTTTTAAAAAGTTTTAAAAACTATATATT
* * *
1042131 ATATAAGTTTTCAAAATGTTTTAAAAACTATATA--
1 ATAT-ATTTTTTAAAAAGTTTTAAAAACTATATATT
* *
1042165 ATATA-----T-AAATGTTTTCAAAACTATATATT
1 ATATATTTTTTAAAAAGTTTTAAAAACTATATATT
* * *
1042194 ATATATTTTTTAAAAATATTTTCAAAAACCATATAAT
1 ATATATTTTTTAAAAA-GTTTT-AAAAACTATATATT
1042231 ATA
1 ATA
1042234 CAAACTTTCG
Statistics
Matches: 240, Mismatches: 24, Indels: 34
0.81 0.08 0.11
Matches are distributed among these distances:
27 20 0.08
29 5 0.02
31 11 0.05
32 13 0.05
33 5 0.02
34 10 0.04
35 22 0.09
36 57 0.24
37 62 0.26
38 35 0.15
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (35 bp):
ATATATTTTTTAAAAAGTTTTAAAAACTATATATT
Found at i:1042081 original size:36 final size:36
Alignment explanation
Indices: 1041917--1042233 Score: 313
Period size: 36 Copynumber: 9.1 Consensus size: 36
1041907 TTTAAAACCA
* * *
1041917 TATATTATATTTAAAAA-GTTTTCAAAACTATATAT
1 TATATAATTTTTAAAAATGTTTTAAAAACTATATAT
* *
1041952 TATAT-AGTTTTCAAAATGTTTTAAAAA-TAT-TA-
1 TATATAATTTTTAAAAATGTTTTAAAAACTATATAT
* * * *
1041984 TATA-AGTTTTCAAAAATGTTTTTAAAACTTTATAT
1 TATATAATTTTTAAAAATGTTTTAAAAACTATATAT
* *
1042019 TATATAATTTTTCCAAAAATGTTTTTAAAATTATATAT
1 TATATAATTTTT--AAAAATGTTTTAAAAACTATATAT
1042057 TATATAATTTTTTAAAAATGTTTTAAAAACTATATAT
1 TATATAA-TTTTTAAAAATGTTTTAAAAACTATATAT
* *
1042094 TATATAAATTTTCAAAATGTTTTAAAAACTATATAT
1 TATATAATTTTTAAAAATGTTTTAAAAACTATATAT
* *
1042130 TATATAAGTTTTCAAAATGTTTTAAAAACTATATA-
1 TATATAATTTTTAAAAATGTTTTAAAAACTATATAT
*
1042165 -ATAT-A----T--AAATGTTTTCAAAACTATATAT
1 TATATAATTTTTAAAAATGTTTTAAAAACTATATAT
* * * *
1042193 TATATATTTTTTAAAAATATTTTCAAAAACCATATAA
1 TATATAATTTTTAAAAATGTTTT-AAAAACTATATAT
1042230 TATA
1 TATA
1042234 CAAACTTTCG
Statistics
Matches: 238, Mismatches: 25, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
27 20 0.08
29 5 0.02
32 21 0.09
33 5 0.02
34 18 0.08
35 18 0.08
36 74 0.31
37 43 0.18
38 29 0.12
39 5 0.02
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATAATTTTTAAAAATGTTTTAAAAACTATATAT
Found at i:1042177 original size:63 final size:64
Alignment explanation
Indices: 1042108--1042233 Score: 191
Period size: 63 Copynumber: 2.0 Consensus size: 64
1042098 TAAATTTTCA
* * *
1042108 AAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTTT-AAAAACTATATAATATAT
1 AAATGTTTTAAAAACTATATATTATATAAGTTTTAAAAATATTTTCAAAAACCATATAATATAT
* **
1042171 AAATGTTTTCAAAACTATATATTATATATTTTTTAAAAATATTTTCAAAAACCATATAATATA
1 AAATGTTTTAAAAACTATATATTATATAAGTTTTAAAAATATTTTCAAAAACCATATAATATA
1042234 CAAACTTTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 40 0.71
64 16 0.29
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (64 bp):
AAATGTTTTAAAAACTATATATTATATAAGTTTTAAAAATATTTTCAAAAACCATATAATATAT
Found at i:1042209 original size:25 final size:27
Alignment explanation
Indices: 1042144--1042198 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
1042134 TAAGTTTTCA
1042144 AAATGTTTTAAAAACTATATAATATAT
1 AAATGTTTTAAAAACTATATAATATAT
* *
1042171 AAATGTTTTCAAAACTATATATTATAT
1 AAATGTTTTAAAAACTATATAATATAT
1042198 A
1 A
1042199 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (27 bp):
AAATGTTTTAAAAACTATATAATATAT
Found at i:1042294 original size:2 final size:2
Alignment explanation
Indices: 1042287--1042316 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1042277 AAAACAAAAT
1042287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1042317 ACAATATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1042299 original size:136 final size:134
Alignment explanation
Indices: 1042035--1042308 Score: 297
Period size: 136 Copynumber: 2.0 Consensus size: 134
1042025 ATTTTTCCAA
* * * * * *
1042035 AAATGTTTTTAAAATTATATATTATATAATTTTTTAAAAATGTTTTAAAAACTATATATTATATA
1 AAATGTTTTCAAAACTATATATTATATAATTTTTTAAAAATATTTTAAAAACCATATAATATACA
* ** *
1042100 AATTTTCAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATA
66 AACTTTCAAAATGTTTTAAAAACTATATATTATATAA--TAACAAAA-GTTATAAAAACTATATA
1042165 -ATATAT
128 TATATAT
1042171 AAATGTTTTCAAAACTATATATTATAT-ATTTTTTAAAAATATTTTCAAAAACCATATAATATAC
1 AAATGTTTTCAAAACTATATATTATATAATTTTTTAAAAATATTTT-AAAAACCATATAATATAC
* * * *
1042235 AAACTTTCGAAAATCGTTTTCTGAAAATTATATATTATATTTAA-AACAAAA-TTATATATA-TA
65 AAACTTTC-AAAAT-G-TTT-TAAAAACTATATATTATA--TAATAACAAAAGTTATAAAAACTA
1042297 TATATATATAT
124 TATATATATAT
1042308 A
1 A
1042309 TATATATAAC
Statistics
Matches: 116, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
135 17 0.15
136 53 0.46
137 18 0.16
138 1 0.01
139 8 0.07
140 16 0.14
142 3 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (134 bp):
AAATGTTTTCAAAACTATATATTATATAATTTTTTAAAAATATTTTAAAAACCATATAATATACA
AACTTTCAAAATGTTTTAAAAACTATATATTATATAATAACAAAAGTTATAAAAACTATATATAT
ATAT
Found at i:1043134 original size:91 final size:91
Alignment explanation
Indices: 1042979--1043152 Score: 321
Period size: 91 Copynumber: 1.9 Consensus size: 91
1042969 AGTGGTGACA
1042979 CAATTGAAATGAAAATAAATGAACAAACTTGTGCCCAAGGTGAATCGAACCAGGGACAAGGGGGA
1 CAATTGAAATGAAAATAAATGAACAAACTTGTGCCCAAGGTGAATCGAACCAGGGACAAGGGGGA
*
1043044 TAAAGCTTCCAGGCGGCATCACCACC
66 TAAAGCCTCCAGGCGGCATCACCACC
* *
1043070 CAATTGAAATGAAAATAAATGAACAAACTTGTGCCCAAGGTGAATCGAACCATGGACAATGGGGA
1 CAATTGAAATGAAAATAAATGAACAAACTTGTGCCCAAGGTGAATCGAACCAGGGACAAGGGGGA
1043135 TAAAGCCTCCAGGCGGCA
66 TAAAGCCTCCAGGCGGCA
1043153 AGCCATTAGG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (91 bp):
CAATTGAAATGAAAATAAATGAACAAACTTGTGCCCAAGGTGAATCGAACCAGGGACAAGGGGGA
TAAAGCCTCCAGGCGGCATCACCACC
Found at i:1043268 original size:20 final size:20
Alignment explanation
Indices: 1043235--1043285 Score: 72
Period size: 17 Copynumber: 2.7 Consensus size: 20
1043225 GGATAAAAAC
1043235 TTAAACAAATTATT-TTT--
1 TTAAACAAATTATTATTTAA
1043252 TTAAACAAATTATTATTTAA
1 TTAAACAAATTATTATTTAA
*
1043272 TTAAATAAATTATT
1 TTAAACAAATTATT
1043286 CACGACTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 14 0.47
18 3 0.10
20 13 0.43
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAACAAATTATTATTTAA
Found at i:1043400 original size:28 final size:28
Alignment explanation
Indices: 1043367--1043425 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
1043357 GAACCAAAAT
1043367 TTATTTGAAAATTATTAACCGAACCGAA
1 TTATTTGAAAATTATTAACCGAACCGAA
* *
1043395 TTATTTGAAAATTATTAACTGAATCGAA
1 TTATTTGAAAATTATTAACCGAACCGAA
1043423 TTA
1 TTA
1043426 AAAATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (28 bp):
TTATTTGAAAATTATTAACCGAACCGAA
Found at i:1043549 original size:92 final size:94
Alignment explanation
Indices: 1043428--1043606 Score: 236
Period size: 92 Copynumber: 1.9 Consensus size: 94
1043418 TCGAATTAAA
* *** * * *
1043428 AATTATTAATCGAATTAATCGAAGCAAAAATTTGGTTAATTCGGTTCGGTTAATCGAACTAA-AT
1 AATTATTAATCGAAATAATCGAAGCAAAAATTCAATTAATTCGGCTCGGTTAATCAAACCAATAT
1043492 TAATTTCAAAATTATTAACCGATTTTTTT
66 TAATTTCAAAATTATTAACCGATTTTTTT
* * *
1043521 AATTATTAATC-AAATAATTGAAGTAAAAATTCAATTAATTCGGCTCGGTTAATTAAACCAATAT
1 AATTATTAATCGAAATAATCGAAGCAAAAATTCAATTAATTCGGCTCGGTTAATCAAACCAATAT
* *
1043585 TTATTTGAAAATTATTAACCGA
66 TAATTTCAAAATTATTAACCGA
1043607 ACCGAATTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 40 0.55
93 33 0.45
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (94 bp):
AATTATTAATCGAAATAATCGAAGCAAAAATTCAATTAATTCGGCTCGGTTAATCAAACCAATAT
TAATTTCAAAATTATTAACCGATTTTTTT
Found at i:1043620 original size:29 final size:29
Alignment explanation
Indices: 1043587--1043645 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1043577 ACCAATATTT
1043587 ATTTGAAAATTATTAACCGAACCGAATTA
1 ATTTGAAAATTATTAACCGAACCGAATTA
*
1043616 ATTTGAAAATTATTAACTGAACCGAATTA
1 ATTTGAAAATTATTAACCGAACCGAATTA
1043645 A
1 A
1043646 CCGATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (29 bp):
ATTTGAAAATTATTAACCGAACCGAATTA
Found at i:1044161 original size:15 final size:15
Alignment explanation
Indices: 1044141--1044171 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1044131 TTCATTTCTA
1044141 TTGGGTGGTGACACG
1 TTGGGTGGTGACACG
1044156 TTGGGTGGTGACACG
1 TTGGGTGGTGACACG
1044171 T
1 T
1044172 GTCACCACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.45, T:0.29
Consensus pattern (15 bp):
TTGGGTGGTGACACG
Found at i:1044588 original size:199 final size:199
Alignment explanation
Indices: 1044229--1044629 Score: 703
Period size: 199 Copynumber: 2.0 Consensus size: 199
1044219 ATTCATAAAT
* *
1044229 AAAATCTTTCAATCATATATTGACACATGTCACGTTTTAATTGGATAGTTAAATTTATTTAATTG
1 AAAATCTTCCAATCATATATTGACACATGTCACGTTTTAATTGAATAGTTAAATTTATTTAATTG
1044294 AATTAAAATAATGACTAAATTGATAGAATATGTAAATATTAAGGACCAAATATATAATTATGCCA
66 AATTAAAATAATGACTAAATTGATAGAATATGTAAATATTAAGGACCAAATATATAATTATGCCA
* *
1044359 ATTTATTAACAGACACGTCACCATATCTGTTAAAAATTAACGGCGCAGTGGTCTGATTGAATCAA
131 ATTTATTAACAGACACATCACCACATCTGTTAAAAATTAACGGCGCAGTGGTCTGATTGAATCAA
1044424 TTAA
196 TTAA
1044428 AAAATCTTCCAATCATATATTGACACATGTCACGTTTTAATTGAATAGTTAAATTTATTTAATTG
1 AAAATCTTCCAATCATATATTGACACATGTCACGTTTTAATTGAATAGTTAAATTTATTTAATTG
* * * *
1044493 AATTAAAATAGTTACTAAATTGATAGAATATGTAAATATTAAGGATCAAATATATAATTATGCTA
66 AATTAAAATAATGACTAAATTGATAGAATATGTAAATATTAAGGACCAAATATATAATTATGCCA
** *
1044558 ATTTATTAATGGACACATCACCACATCTGTTAAAAATTAACGGCGCGGTGGTCTGATTGAATCAA
131 ATTTATTAACAGACACATCACCACATCTGTTAAAAATTAACGGCGCAGTGGTCTGATTGAATCAA
1044623 TTAA
196 TTAA
1044627 AAA
1 AAA
1044630 CTTTGGTGGT
Statistics
Matches: 191, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 191 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (199 bp):
AAAATCTTCCAATCATATATTGACACATGTCACGTTTTAATTGAATAGTTAAATTTATTTAATTG
AATTAAAATAATGACTAAATTGATAGAATATGTAAATATTAAGGACCAAATATATAATTATGCCA
ATTTATTAACAGACACATCACCACATCTGTTAAAAATTAACGGCGCAGTGGTCTGATTGAATCAA
TTAA
Found at i:1044639 original size:30 final size:30
Alignment explanation
Indices: 1044604--1044677 Score: 148
Period size: 30 Copynumber: 2.5 Consensus size: 30
1044594 TTAACGGCGC
1044604 GGTGGTCTGATTGAATCAATTAAAAACTTT
1 GGTGGTCTGATTGAATCAATTAAAAACTTT
1044634 GGTGGTCTGATTGAATCAATTAAAAACTTT
1 GGTGGTCTGATTGAATCAATTAAAAACTTT
1044664 GGTGGTCTGATTGA
1 GGTGGTCTGATTGA
1044678 GACAAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (30 bp):
GGTGGTCTGATTGAATCAATTAAAAACTTT
Found at i:1049763 original size:39 final size:37
Alignment explanation
Indices: 1049680--1049767 Score: 88
Period size: 39 Copynumber: 2.4 Consensus size: 37
1049670 GTCATCTCAT
* *
1049680 TTGAGACAAGTTTTCTTAAAAGAAAATTTTGTCTCGA
1 TTGAGACAAGTTTTCTCAAAACAAAATTTTGTCTCGA
* * * **
1049717 TTAAGACAATTTTTACTCAAAACAAAGTTTTTGTCTCTC
1 TTGAGACAAGTTTT-CTCAAAACAAA-ATTTTGTCTCGA
1049756 TTGAGAC-AGTTT
1 TTGAGACAAGTTT
1049768 CTTTTGAAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
37 12 0.30
38 13 0.32
39 15 0.38
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (37 bp):
TTGAGACAAGTTTTCTCAAAACAAAATTTTGTCTCGA
Found at i:1049817 original size:66 final size:66
Alignment explanation
Indices: 1049735--1050073 Score: 298
Period size: 66 Copynumber: 5.1 Consensus size: 66
1049725 ATTTTTACTC
* *
1049735 AAAACAAAGTTTTTGTCTCTCTTGAGACAGTTTCTTTTGAA-ACACAAATAGTTGAGTATGTTTC
1 AAAACAAA-ATTTTGTCTCTCTTGAGACAGTTTCTTTTGAAGA-A-AAATATTTGAGTATGTTTC
*
1049799 TTTT
63 TTTG
* * * * * * *
1049803 AAAAC-AAGTTTTGTCTCTCTTGGGACAATTTCTTTTGAAGAACAATCTTTGAGTCTGTTTATTT
1 AAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGAAGAAAAATATTTGAGTATGTTTCTTT
1049867 GG
66 -G
* * * * * *
1049869 AAAA-AAAA--TTATCT-TTTATGAGATAGTTTCTTTTGAAGAAAAATATTTGAGTCTATTTTTT
1 AAAACAAAATTTTGTCTCTCT-TGAGACAGTTTCTTTTGAAGAAAAATATTTGAGTATGTTTCTT
1049930 TGG
65 T-G
* * * * * * *
1049933 AAACCAAAATTTTGTCTCTTTTGAAATAGTTTCTGTTGAAGAAAAATCTTTGAGCATGTTTCTTT
1 AAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGAAGAAAAATATTTGAGTATGTTTCTTT
1049998 G
66 G
* * * * *
1049999 GAAACGAAATTTTGTCTCTCTTGAGACA-TTATCTTTTGAAGGAAAATCTTTGAGTCTGTTTCTC
1 AAAACAAAATTTTGTCTCTCTTGAGACAGTT-TCTTTTGAAGAAAAATATTTGAGTATGTTTCT-
1050063 TTG
64 TTG
1050066 -AAACAAAA
1 AAAACAAAA
1050074 CCATCTTTGA
Statistics
Matches: 222, Mismatches: 39, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
63 2 0.01
64 47 0.21
65 23 0.10
66 94 0.42
67 48 0.22
68 8 0.04
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.42
Consensus pattern (66 bp):
AAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGAAGAAAAATATTTGAGTATGTTTCTTT
G
Found at i:1050412 original size:134 final size:134
Alignment explanation
Indices: 1050171--1050665 Score: 765
Period size: 134 Copynumber: 3.7 Consensus size: 134
1050161 GAAACCATTA
1050171 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCATGTCATCCACCGACCAGATCTCCTCA
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCATGTCATCCACCGACCAGATCTCCTCA
* * *
1050236 TCATGTAGGAGTCGTGTCACCCCTAGATAACCAGTCATCCTCATCACGCAGGAACCGAGTTATCA
66 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATCA
1050301 CCCT
131 CCCT
* * * * * * *
1050305 CCCTAAAGATTGCCAGAACACTTCATCACGTACGAGCCGTGTCATCCCCCGACCAGATCTCCTCA
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCATGTCATCCACCGACCAGATCTCCTCA
* * * * *
1050370 TCACATAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCGCGTATGAATCGAGTTATCA
66 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATCA
1050435 CCCT
131 CCCT
* * *
1050439 TCCTAAAGATGGTCAGAACTCTTCATCACGTATGAGTCATGTCATCTACCGACCAGACCTCCTCA
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCATGTCATCCACCGACCAGATCTCCTCA
* * *
1050504 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCCTCATCATGTAGGAACTGTGTTATCA
66 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATCA
1050569 CCCT
131 CCCT
* *
1050573 TCCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGACATGTCATCCCCCGACCAGATCTCCTC
1 TCCTAAAGATGGCC-AGAACTCTTCATCACGTATGAGTCATGTCATCCACCGACCAGATCTCCTC
*
1050638 ATCACGTAGGAGCCGTGTCACCCTTAGA
65 ATCACGTAGGAGCCGTGTCACCCCTAGA
1050666 CGACCAGAAC
Statistics
Matches: 321, Mismatches: 39, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
134 248 0.77
135 73 0.23
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (134 bp):
TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCATGTCATCCACCGACCAGATCTCCTCA
TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATCA
CCCT
Found at i:1050863 original size:3 final size:3
Alignment explanation
Indices: 1050855--1050911 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
1050845 CTACCAAAAA
* *
1050855 TAT TAT TA- TAT TAT AAA TAT TAAT TAT T-T TATT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT -TAT
1050901 TAT TAT TAT TA
1 TAT TAT TAT TA
1050912 AATATTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 4 0.09
3 32 0.71
4 9 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1050886 original size:18 final size:17
Alignment explanation
Indices: 1050852--1050911 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 17
1050842 GTTCTACCAA
1050852 AAATATTATTATATTAT
1 AAATATTATTATATTAT
1050869 AAATATTAATTAT-TT-T
1 AAATATT-ATTATATTAT
**
1050885 ATTTATTATTATA-TAT
1 AAATATTATTATATTAT
* *
1050901 TATTATTATTA
1 AAATATTATTA
1050912 AATATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 6 0.17
16 16 0.44
17 9 0.25
18 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATATTATTATATTAT
Found at i:1050891 original size:16 final size:16
Alignment explanation
Indices: 1050872--1050922 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
1050862 ATATTATAAA
1050872 TATTAATTATTTTATT
1 TATTAATTATTTTATT
1050888 TATT-ATTATATATTATTAT
1 TATTAATTAT-T-TTA-T-T
*
1050907 TATTAAATATTTTATT
1 TATTAATTATTTTATT
1050923 ACATATTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
15 5 0.17
16 6 0.21
17 4 0.14
18 4 0.14
19 6 0.21
20 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTAATTATTTTATT
Found at i:1050911 original size:35 final size:36
Alignment explanation
Indices: 1050855--1050922 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
1050845 CTACCAAAAA
*
1050855 TATTATTATATTATAAATATTAATTATTTTATTTAT
1 TATTATTATATTATAAATATTAAATATTTTATTTAT
* *
1050891 TATTA-TATATTATTATTATTAAATATTTTATT
1 TATTATTATATTATAAATATTAAATATTTTATT
1050923 ACATATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 24 0.83
36 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (36 bp):
TATTATTATATTATAAATATTAAATATTTTATTTAT
Found at i:1052791 original size:5 final size:5
Alignment explanation
Indices: 1052783--1052825 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
1052773 TTTTCCCTCT
* * *
1052783 TTTTA TTTTA TTTTA TTTT- TTTTA CTTTA GTTTA GTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1052826 TGTGAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:1059386 original size:20 final size:20
Alignment explanation
Indices: 1059361--1059401 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1059351 TTATGACTTC
* *
1059361 TATAGGTAGAGTATCGATAA
1 TATAGGGAGAATATCGATAA
*
1059381 TATAGGGATAATATCGATAA
1 TATAGGGAGAATATCGATAA
1059401 T
1 T
1059402 TGTTCTTCGT
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:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (20 bp):
TATAGGGAGAATATCGATAA
Found at i:1060849 original size:99 final size:98
Alignment explanation
Indices: 1060698--1060895 Score: 242
Period size: 99 Copynumber: 2.0 Consensus size: 98
1060688 TATCCTTTTC
* *
1060698 AATAAAAAAATACAAAATATATTAACAGTAAATAAAACTAATTTTTGCATGTAACATA-ATTTAA
1 AATAAAAAAATACAAAATATATTAACAGTAAATAAAACTAATTTTTACATGTAACATACA-ATAA
* *
1060762 TAATGTCATAAGTTCTACTTCTTGTTTTATTTAGA
65 TAATATCATAAGTTCTACTTCTTGTTCT-TTTAGA
* **
1060797 AATAAATAAAATA-ATAATATATATTAAGAGTAAATAAAA-T-ATTTTTACATGTAATTTACAAT
1 AATAAA-AAAATACA-AA-ATATATTAACAGTAAATAAAACTAATTTTTACATGTAACATACAAT
* *
1060859 AATAATATCATAAGTTCTAGTTGTTGTTCTTTTAGA
63 AATAATATCATAAGTTCTACTTCTTGTTCTTTTAGA
1060895 A
1 A
1060896 TTTTTTTTAA
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
98 7 0.08
99 49 0.57
100 10 0.12
101 20 0.23
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (98 bp):
AATAAAAAAATACAAAATATATTAACAGTAAATAAAACTAATTTTTACATGTAACATACAATAAT
AATATCATAAGTTCTACTTCTTGTTCTTTTAGA
Found at i:1062096 original size:33 final size:35
Alignment explanation
Indices: 1062049--1062198 Score: 130
Period size: 35 Copynumber: 4.1 Consensus size: 35
1062039 ATAAAACAAG
* *
1062049 AAAATATTAAATAAATCAAAGGATAAAAAT-AATA
1 AAAATAATAAATAAATCAAAGGAAAAAAATAAATA
1062083 AAAATAAT-AATAAATCAAAGGAGAAAATGAAATAAGATA
1 AAAATAATAAATAAATCAAA-G-GAAAA--AAATAA-ATA
*
1062122 AAAA-AATAAAAAAATCAAAGGAAAGTAAAATAAATA
1 AAAATAATAAATAAATCAAAGGAAA--AAAATAAATA
* *
1062158 AAAA-AAAAAAT-TATCAAAGGAAAAATAATAAAATA
1 AAAATAATAAATAAATCAAAGGAAAAA-AAT-AAATA
1062193 TAAAAT
1 -AAAAT
1062199 TGTTAAATTT
Statistics
Matches: 97, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
33 13 0.13
34 11 0.11
35 20 0.21
36 16 0.16
37 14 0.14
38 5 0.05
39 18 0.19
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.19
Consensus pattern (35 bp):
AAAATAATAAATAAATCAAAGGAAAAAAATAAATA
Found at i:1062116 original size:75 final size:71
Alignment explanation
Indices: 1062031--1062190 Score: 164
Period size: 75 Copynumber: 2.2 Consensus size: 71
1062021 GAAAAAGAAT
* * * *
1062031 AAAATAAAATAAAACAAGAAAATATTAAATAAATCAAAGGATA-AAAAT-AATAAAAATAATAAT
1 AAAAT-AAATAAAACAA-AAAA-A-TAAAAAAATCAAAGGAAAGAAAATAAATAAAAAAAAAAAT
1062094 AAATCAAAGGA
62 -AATCAAAGGA
* * *
1062105 GAAAATGAAATAAGATAAAAAAATAAAAAAATCAAAGGAAAGTAAAATAAATAAAAAAAAAAATT
1 -AAAAT-AAATAAAACAAAAAAATAAAAAAATCAAAGGAAAG-AAAATAAATAAAAAAAAAAATA
1062170 ATCAAAGGA
63 ATCAAAGGA
1062179 AAAAT-AATAAAA
1 AAAATAAATAAAA
1062191 TATAAAATTG
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
71 6 0.08
72 16 0.22
73 6 0.08
74 18 0.25
75 27 0.37
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (71 bp):
AAAATAAATAAAACAAAAAAATAAAAAAATCAAAGGAAAGAAAATAAATAAAAAAAAAAATAATC
AAAGGA
Found at i:1062190 original size:39 final size:38
Alignment explanation
Indices: 1062011--1062192 Score: 96
Period size: 39 Copynumber: 4.7 Consensus size: 38
1062001 GGAATAAATC
* *
1062011 AAAA-ATCAAA-GAAAAAGAATAAAATAAAATAAAACAAG
1 AAAATATCAAAGGAAAAATAATAAAAT-AAATAAAA-AAA
* ** **
1062049 AAAATATTAAATAAATCAAAGGATAAAA-ATAATAAAAATAA
1 AAAATATCAAAGGAA--AAATAATAAAATA-AATAAAAA-AA
* *
1062090 TAATAA-ATCAAAGGAGAAAATGAAATAAGATAAA-AAAATAA
1 -AA-AATATCAAAGGA-AAAAT--AATAAAATAAATAAAAAAA
*
1062131 AAAA-ATCAAAGG---AA-AGTAAAATAAATAAAAAAA
1 AAAATATCAAAGGAAAAATAATAAAATAAATAAAAAAA
1062164 AAAATTATCAAAGGAAAAATAATAAAATA
1 AAAA-TATCAAAGGAAAAATAATAAAATA
1062193 TAAAATTGTT
Statistics
Matches: 110, Mismatches: 15, Indels: 37
0.68 0.09 0.23
Matches are distributed among these distances:
32 9 0.08
33 10 0.09
35 10 0.09
38 6 0.05
39 23 0.21
40 6 0.05
41 13 0.12
42 22 0.20
43 10 0.09
44 1 0.01
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.16
Consensus pattern (38 bp):
AAAATATCAAAGGAAAAATAATAAAATAAATAAAAAAA
Found at i:1064401 original size:84 final size:83
Alignment explanation
Indices: 1064183--1065047 Score: 904
Period size: 84 Copynumber: 10.5 Consensus size: 83
1064173 AACTCGACGA
** *
1064183 TTTTGTTGATAGATAACCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTCGGGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTT-GGGCTGAGT
*
1064248 GGAATCGAACTCGAAGGTC
65 GTAATCGAACTCGAAGGTC
** * * **
1064267 ---T-TTGGCAGATAACCCTTCTCCCCTTGAGTTATGCTGCAAATGATACGCCTTCGGGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTT-GGGCTGAGT
*
1064328 ATAATCGAACTCGAAGGTC
65 GTAATCGAACTCGAAGGTC
* * *
1064347 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGG-GCTGAGT
* * *
1064412 ATAGTCGAACTCGAAAGTC
65 GTAATCGAACTCGAAGGTC
* * * * * * *
1064431 ---T-TTGGCAGATAGCCCTTCTTTCCTTAAGTTGTGCTGCAAATGATGTGCCTTGAGCTGAGTG
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGGCTGAGTG
1064492 TAATCGAACTCGAAGGTC
66 TAATCGAACTCGAAGGTC
* * * * * * * *
1064510 ---T-TTGCCAGATAACCCTTATGGCCTTGAGTTATGCTGCAAATGACGTGCCTCTGAGTTGAGT
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCT-TGGGCTGAGT
*
1064571 GTAATCGAACTCAAAGGTC
65 GTAATCGAACTCGAAGGTC
* * * *
1064590 ---T-TTGGCAGATAACCCTTCTTGTCTTAAGCTATGCTT-CAAATGATGTGCCTTGAGCTGATT
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATG-TTGCAAATGATGTGCCTTGGGCTGAGT
1064650 GTAATCG-ACTCGAAGGTC
65 GTAATCGAACTCGAAGGTC
* * * * *
1064668 TTTTGTTGGAAAATAAACCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGG-GCTGAGT
*
1064733 GTAGTCGAACTCGAAGGTC
65 GTAATCGAACTCGAAGGTC
* * *
1064752 TTTTATTGGAAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGG-GCTGAG-
* *
1064817 T-TAGTCAAACTCGAAGGTC
64 TGTAATCGAACTCGAAGGTC
* * * * *
1064836 TTTTGGTGGCAAATAGCCCTTCTTACCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGG-GCTGAGT
*
1064901 GTAGTCGAACTCGAAGGTC
65 GTAATCGAACTCGAAGGTC
* * * * * ** * *
1064920 TTGTGTTGGTAGATAACCATTCTAGCCTTGAGTTATACTACAAATGATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCC-TTGGGCTGAGT
1064985 GTAATCGAACTCGAAGGTC
65 GTAATCGAACTCGAAGGTC
* * * *
1065004 TTTTGGTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAA
1 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAA
1065048 ATAAATAAAA
Statistics
Matches: 661, Mismatches: 103, Indels: 34
0.83 0.13 0.04
Matches are distributed among these distances:
78 10 0.02
79 79 0.12
80 178 0.27
81 6 0.01
82 42 0.06
83 14 0.02
84 329 0.50
85 3 0.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (83 bp):
TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGGCTGAGTG
TAATCGAACTCGAAGGTC
Found at i:1064875 original size:168 final size:163
Alignment explanation
Indices: 1064195--1065047 Score: 1029
Period size: 168 Copynumber: 5.2 Consensus size: 163
1064185 TTGTTGATAG
* * * *
1064195 ATAACCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTCGG-GCTGAGTGGAATCGAACT
1 ATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAACT
** ** *
1064259 CGAAGGTCTTTGGCAGATAACCCTTCTCCCCTTGAGTTATGCTGCAAATGATACGCCTTCGGGCT
65 CGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTT-GAGCT
* *
1064324 GAGTATAATCGAACTCGAAGGTCTTTTGTTGGCAA
129 GAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAA
* *
1064359 ATAACCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * * *
1064424 GAAAGTCTTTGGCAGATAGCCCTTCTTTCCTTAAGTTGTGCTGCAAATGATGTGCCTTGAGCTGA
66 GAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGAGCTGA
* *
1064489 GTGTAATCGAACTCGAAGGTC--TT--TGCCAG
131 GTGTAATCGAACTCGAAGGTCTTTTGGTGGCAA
* * * * * * * *
1064518 ATAACCCTTATGGCCTTGAGTTATGCTGCAAATGACGTGCCTCT-GAGTTGAGTGTAATCGAACT
1 ATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCT-TGGAGCTGAGCGTAGTCGAACT
* * * * *
1064582 CAAAGGTCTTTGGCAGATAACCCTTCTTGTCTTAAGCTATGCTTCAAATGATGTGCCTTGAGCTG
65 CGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGAGCTG
* * *
1064647 ATTGTAATCG-ACTCGAAGGTCTTTTGTTGGAAA
130 AGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAA
* *
1064680 ATAAACCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * *
1064745 GAAGGTCTTTTATTGGAAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGA
66 GAAGGTC---T-TTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTT-GA
* *
1064810 GCTGAGCT-TAGTCAAACTCGAAGGTCTTTTGGTGGCAA
126 GCTGAG-TGTAATCGAACTCGAAGGTCTTTTGGTGGCAA
* *
1064848 ATAGCCCTTCTTACCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
* * * * *
1064913 GAAGGTCTTGTGTTGGTAGATAACCATTCTAGCCTTGAGTTATACTACAAATGATGTGCCTTTGA
66 GAAGGTC---T-TTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCC-TTGA
* *
1064978 GCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGACAG
126 GCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAA
* *
1065016 ATAGCCCTTCTTGCCTTGAGCTATGCTGCAAA
1 ATAACCCTTCTTGCCTTGAGCTATGTTGCAAA
1065048 ATAAATAAAA
Statistics
Matches: 595, Mismatches: 78, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
158 11 0.02
159 122 0.21
160 3 0.01
161 3 0.01
162 64 0.11
163 28 0.05
164 108 0.18
165 1 0.00
166 44 0.07
167 12 0.02
168 197 0.33
169 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (163 bp):
ATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTGAGCTGA
GTGTAATCGAACTCGAAGGTCTTTTGGTGGCAA
Found at i:1066364 original size:94 final size:94
Alignment explanation
Indices: 1066164--1066424 Score: 341
Period size: 94 Copynumber: 2.7 Consensus size: 94
1066154 GGCTAGCTGA
* * *
1066164 ATCCATAAAGCC-GGGCATTTAACCAATTGCTCTAGAGGGACAACTTAA--TATCATTGGATAGA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATT-G-T--A
1066226 TATTATAATCACCTTTATCAGGCTAGCTGAATATT
61 TATTATAATCA-CTTTATCAGGCTAGCTGAATATT
1066261 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
*
1066326 TAATCA-TTTCATCAGGCTAGCTGAATCTT
66 TAATCACTTT-ATCAGGCTAGCTGAATATT
* * * **
1066355 ATCCATAAAGTCGGGGTGTTTAACCAATTGCTTTAGAGGGACAGTTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T
1066420 ATAAT
65 ATAAT
1066425 ATTATAATAT
Statistics
Matches: 150, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
93 3 0.02
94 76 0.51
95 18 0.12
97 13 0.09
98 35 0.23
99 4 0.03
100 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (94 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACTTTATCAGGCTAGCTGAATATT
Found at i:1069034 original size:5 final size:5
Alignment explanation
Indices: 1069019--1069215 Score: 62
Period size: 5 Copynumber: 36.8 Consensus size: 5
1069009 CAATAAATAA
* *
1069019 AAAACT AAAAT AAAAT AAAAGT AATAA- ATAAAT AAAAT TAAAG AAAA-
1 AAAA-T AAAAT AAAAT AAAA-T AA-AAT A-AAAT AAAAT AAAAT AAAAT
* * * *
1069066 AGAAT AAAAT AAAAC AAGAA- AATAT TAAAT AAATCAT AGGAAA- AAAAT
1 AAAAT AAAAT AAAAT AA-AAT AAAAT AAAAT AAA--AT A--AAAT AAAAT
* **
1069114 AACAAC AATAAT AAAAAT AATAAT AAAAT AAAAT AAAAAAT CAAAGG AAAA-
1 AA-AAT AA-AAT -AAAAT AA-AAT AAAAT AAAAT --AAAAT -AAAAT AAAAT
* * * ** *
1069165 AAAAT GAAAT AAGAT AAAAA ATAAAT CAAAGG AAAGT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT A-AAAT -AAAAT AAAAT AAAAT AAAAT AAAA
1069216 CAAAGGAAAT
Statistics
Matches: 144, Mismatches: 27, Indels: 41
0.68 0.13 0.19
Matches are distributed among these distances:
4 11 0.08
5 83 0.58
6 34 0.24
7 14 0.10
9 2 0.01
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:1069044 original size:27 final size:26
Alignment explanation
Indices: 1069014--1069074 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
1069004 AAAAGCAATA
1069014 AATAAAAAACTAAAA-TAAA-ATAAAAG
1 AATAAAAAA-TAAAATTAAAGA-AAAAG
1069040 TAATAAATAAATAAAATTAAAGAAAAAG
1 -AATAAA-AAATAAAATTAAAGAAAAAG
1069068 AATAAAA
1 AATAAAA
1069075 TAAAACAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.03
27 17 0.55
28 12 0.39
29 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (26 bp):
AATAAAAAATAAAATTAAAGAAAAAG
Found at i:1069135 original size:12 final size:12
Alignment explanation
Indices: 1069120--1069152 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
1069110 AAATAACAAC
1069120 AATAATAAAAAT
1 AATAATAAAAAT
1069132 AATAAT-AAAAT
1 AATAATAAAAAT
1069143 AA-AATAAAAA
1 AATAATAAAAA
1069153 ATCAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.15
11 11 0.55
12 6 0.30
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:1069176 original size:37 final size:37
Alignment explanation
Indices: 1069126--1069215 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
1069116 CAACAATAAT
1069126 AAAAATAATAATAAAATAAAATAAAAAATCAAAGGAAA-
1 AAAAATAA-AATAAAATAAAA-AAAAAATCAAAGGAAAG
* * *
1069164 AAAAATGAAATAAGATAAAAAATAAATCAAAGGAAAG
1 AAAAATAAAATAAAATAAAAAAAAAATCAAAGGAAAG
*
1069201 TAAAATAAAATAAAA
1 AAAAATAAAATAAAA
1069216 CAAAGGAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 15 0.33
37 23 0.51
38 7 0.16
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (37 bp):
AAAAATAAAATAAAATAAAAAAAAAATCAAAGGAAAG
Found at i:1069214 original size:25 final size:25
Alignment explanation
Indices: 1069182--1069251 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 25
1069172 AATAAGATAA
1069182 AAAATAAATCAAAGGAAAGT-AAAAT
1 AAAATAAATCAAAGGAAA-TAAAAAT
*
1069207 AAAATAAAACAAAGGAAATAAAAAT
1 AAAATAAATCAAAGGAAATAAAAAT
*
1069232 AAAAAAATTATCAAAGGAAA
1 AAAATAA--ATCAAAGGAAA
1069252 AAATAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 28 0.72
27 10 0.26
ACGTcount: A:0.71, C:0.04, G:0.10, T:0.14
Consensus pattern (25 bp):
AAAATAAATCAAAGGAAATAAAAAT
Found at i:1069220 original size:20 final size:20
Alignment explanation
Indices: 1069068--1069235 Score: 54
Period size: 18 Copynumber: 8.6 Consensus size: 20
1069058 AAAGAAAAAG
1069068 AATAAAATAAAAC-AAG-AA
1 AATAAAATAAAACAAAGTAA
* * *
1069086 AATATTAAATAAATCATAG-GA
1 AATA--AAATAAAACAAAGTAA
1069107 AA-AAAATAACAAC-AA-TAA
1 AATAAAATAA-AACAAAGTAA
* * *
1069125 TA-AAAATAATAATAAAATAA
1 AATAAAATAA-AACAAAGTAA
* *
1069145 AAT-AAA-AAATCAAAGGAA
1 AATAAAATAAAACAAAGTAA
* *
1069163 AA-AAAATGAAA-TAAGATAA
1 AATAAAATAAAACAAAG-TAA
* **
1069182 AAAATAAATCAAAGGAAAGTAA
1 AATA-AAAT-AAAACAAAGTAA
*
1069204 AATAAAATAAAACAAAG-GA
1 AATAAAATAAAACAAAGTAA
1069223 AATAAAAATAAAA
1 AAT-AAAATAAAA
1069236 AAATTATCAA
Statistics
Matches: 109, Mismatches: 25, Indels: 30
0.66 0.15 0.18
Matches are distributed among these distances:
18 36 0.33
19 16 0.15
20 33 0.30
21 13 0.12
22 8 0.07
23 3 0.03
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (20 bp):
AATAAAATAAAACAAAGTAA
Found at i:1069254 original size:25 final size:24
Alignment explanation
Indices: 1069178--1069262 Score: 77
Period size: 24 Copynumber: 3.4 Consensus size: 24
1069168 ATGAAATAAG
*
1069178 ATAAAAAATAAATCAAAGGAAAGTAAA
1 ATAAAAAA-ATATCAAAGGAAA--AAA
1069205 ATAAAATAAA-A-CAAAGGAAATAAAA
1 ATAAAA-AAATATCAAAGG-AA-AAAA
1069230 ATAAAAAAATTATCAAAGG-AAAAA
1 ATAAAAAAA-TATCAAAGGAAAAAA
1069254 ATAAAAAAA
1 ATAAAAAAA
1069263 AATGTTAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
24 16 0.31
25 16 0.31
26 4 0.08
27 14 0.27
28 2 0.04
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.14
Consensus pattern (24 bp):
ATAAAAAAATATCAAAGGAAAAAA
Found at i:1070596 original size:6 final size:6
Alignment explanation
Indices: 1070585--1070617 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
1070575 TTAGACATTT
1070585 CCTCCC CCTCCC CCTCCC CCTCCC CCTCCC CCT
1 CCTCCC CCTCCC CCTCCC CCTCCC CCTCCC CCT
1070618 TCAAGCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.82, G:0.00, T:0.18
Consensus pattern (6 bp):
CCTCCC
Found at i:1071893 original size:23 final size:23
Alignment explanation
Indices: 1071867--1071946 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
1071857 GTATAAATAC
*
1071867 TTAAATTCATAATAT-TTTATATA
1 TTAAATT-AAAATATATTTATATA
* *
1071890 TTAACTTAAAATATATTTTTATA
1 TTAAATTAAAATATATTTATATA
*
1071913 TTAACTTATTAAATATATTT-TATTA
1 TTAAATTA--AAATATATTTATA-TA
*
1071938 TTAACTTAA
1 TTAAATTAA
1071947 TTTTAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
22 6 0.12
23 22 0.44
24 2 0.04
25 20 0.40
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
TTAAATTAAAATATATTTATATA
Found at i:1071926 original size:25 final size:23
Alignment explanation
Indices: 1071878--1071946 Score: 95
Period size: 25 Copynumber: 2.9 Consensus size: 23
1071868 TAAATTCATA
1071878 ATATTTTATATATTAACTTAAAAT
1 ATATTTT-TATATTAACTTAAAAT
1071902 ATATTTTTATATTAACTTATTAAAT
1 ATATTTTTATATTAACTTA--AAAT
1071927 ATA-TTTTATTATTAACTTAA
1 ATATTTTTA-TATTAACTTAA
1071947 TTTTAAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
23 13 0.31
24 12 0.29
25 17 0.40
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTTTTATATTAACTTAAAAT
Found at i:1072154 original size:26 final size:26
Alignment explanation
Indices: 1072122--1072193 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
1072112 TGACCATATT
1072122 TTAATTAAATGAAAATGAAAGTAATC
1 TTAATTAAATGAAAATGAAAGTAATC
* * *
1072148 TTAATTAAATAAAAACGAAAGTGATC
1 TTAATTAAATGAAAATGAAAGTAATC
1072174 TTAATTAAATGAAAATGAAA
1 TTAATTAAATGAAAATGAAA
1072194 ATGACAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.29
Consensus pattern (26 bp):
TTAATTAAATGAAAATGAAAGTAATC
Found at i:1073283 original size:182 final size:181
Alignment explanation
Indices: 1073014--1073468 Score: 691
Period size: 182 Copynumber: 2.5 Consensus size: 181
1073004 ATTCATATCA
* * * * *
1073014 ATATAACAGGTAAAAA-ATGACAAAACCGGTCA-CGAAAAGACAATACCGGTAAAGCGCTACC-A
1 ATATAACAAGTAAAAATATGACAAAA-CGGT-ATCGAAATGATAAAACCGGTAAATCGCTACCGA
1073076 GATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGTA
64 -ATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGTA
* * * *
1073141 GGTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCAACAACG
128 GGTTTAGCACCTATAAAGTATCGATACTTTAAAAAAATGTATCGACCAACAACG
* *
1073195 ATATAACAAGTAAAAATATGACAAAACAGGTATCGAAATGATAAAATCGGTAAATTGCTACCGAA
1 ATATAACAAGTAAAAATATGACAAAAC-GGTATCGAAATGATAAAACCGGTAAATCGCTACCGAA
* *
1073260 TATATTGAAAGTGTCGATACTTTAATTTAAGTATCGACACTTTGTGAATTTAAAAGAGAAGTAGT
65 TATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGTAGG
* *
1073325 TTTAGCATCTATAAAGTATCGATACTTTAAAAAAATGTATCGACCTACAACG
130 TTTAGCACCTATAAAGTATCGATACTTTAAAAAAATGTATCGACCAACAACG
* *
1073377 ATATAACAAGTAAAAATATGACAAAATCGGTATCGAAATGATAAAACCGGTAAATCGCTACTGGA
1 ATATAACAAGTAAAAATATGACAAAA-CGGTATCGAAATGATAAAACCGGTAAATCGCTACCGAA
1073442 TATATTGAAAGTGTCGATACTTTAATA
65 TATATTGAAAGTGTCGATACTTTAATA
1073469 AGTACGTGTA
Statistics
Matches: 249, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
181 17 0.07
182 230 0.92
183 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (181 bp):
ATATAACAAGTAAAAATATGACAAAACGGTATCGAAATGATAAAACCGGTAAATCGCTACCGAAT
ATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGTAGGT
TTAGCACCTATAAAGTATCGATACTTTAAAAAAATGTATCGACCAACAACG
Found at i:1075562 original size:15 final size:15
Alignment explanation
Indices: 1075542--1075570 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1075532 ATTGTATTGG
1075542 GGGATGACGGTGAGA
1 GGGATGACGGTGAGA
1075557 GGGATGACGGTGAG
1 GGGATGACGGTGAG
1075571 GGAAAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.55, T:0.14
Consensus pattern (15 bp):
GGGATGACGGTGAGA
Found at i:1075679 original size:21 final size:21
Alignment explanation
Indices: 1075655--1075698 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1075645 AAGACAATTA
*
1075655 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
*
1075676 AGAGTCAAAGAGACACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
1075697 AG
1 AG
1075699 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.32, T:0.14
Consensus pattern (21 bp):
AGAGTCAAAGAGAAACTTGAG
Found at i:1075738 original size:15 final size:16
Alignment explanation
Indices: 1075718--1075747 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1075708 GGAAGCGGAA
1075718 GGAAAAATAG-TGGAC
1 GGAAAAATAGATGGAC
1075733 GGAAAAATAGATGGA
1 GGAAAAATAGATGGA
1075748 GTGGTGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.03, G:0.33, T:0.13
Consensus pattern (16 bp):
GGAAAAATAGATGGAC
Found at i:1076628 original size:12 final size:12
Alignment explanation
Indices: 1076608--1076680 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
1076598 CAATCGGTCA
*
1076608 ATGAAGATGAAG
1 ATGACGATGAAG
1076620 ATGACGATGAAGAAG
1 ATGACGAT---GAAG
*
1076635 ATGATGATGAAG
1 ATGACGATGAAG
* *
1076647 ATGACGACGACG
1 ATGACGATGAAG
* *
1076659 ACGACGATGATG
1 ATGACGATGAAG
*
1076671 ATGATGATGA
1 ATGACGATGA
1076681 TCCAAACAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
12 37 0.77
15 11 0.23
ACGTcount: A:0.41, C:0.08, G:0.33, T:0.18
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1076636 original size:15 final size:15
Alignment explanation
Indices: 1076616--1076647 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1076606 CAATGAAGAT
1076616 GAAGATGACGATGAA
1 GAAGATGACGATGAA
*
1076631 GAAGATGATGATGAA
1 GAAGATGACGATGAA
1076646 GA
1 GA
1076648 TGACGACGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.34, T:0.16
Consensus pattern (15 bp):
GAAGATGACGATGAA
Found at i:1078113 original size:127 final size:128
Alignment explanation
Indices: 1077887--1078145 Score: 340
Period size: 127 Copynumber: 2.0 Consensus size: 128
1077877 CCATAAAGTG
* * * *
1077887 TCGATACATTTTTAAAAAGTAACGACCCCAAAAACATTAAAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTTCAAAAAGTAACGACCCCAAAAACATCAAAACCAATAATTATAATGTAAGAGGT
* * * *
1077952 AAATTTACAATGTAACAGGTATAAATATACTGGTTTTATGA-AAAATATGTCTATAACATGCA
66 AAATTTACAATATAACAGCTATAAATATACTGGTTTTATGAGAAAATAGGTCTACAACATGCA
** * *
1078014 TCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCAATAATTATAATGTAAGAGGT
1 TCGATACATTTTCAAAAAGTAACGACCCCAAAAACATCAAAACCAATAATTATAATGTAAGAGGT
* ** * * * *
1078079 AATTTTGTAATATAGCCGCTATAAATATACTGGTTTTATGAGAGAATAGGTCTACAACATGTA
66 AAATTTACAATATAACAGCTATAAATATACTGGTTTTATGAGAAAATAGGTCTACAACATGCA
1078142 TCGA
1 TCGA
1078146 CACTTTTTAA
Statistics
Matches: 112, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
127 91 0.81
128 21 0.19
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (128 bp):
TCGATACATTTTCAAAAAGTAACGACCCCAAAAACATCAAAACCAATAATTATAATGTAAGAGGT
AAATTTACAATATAACAGCTATAAATATACTGGTTTTATGAGAAAATAGGTCTACAACATGCA
Found at i:1078330 original size:179 final size:179
Alignment explanation
Indices: 1078029--1078752 Score: 750
Period size: 200 Copynumber: 3.8 Consensus size: 179
1078019 ACATTTTCAA
* * *
1078029 AAAGTGTCGATCCCAAAAACATCGAAACCAATAATTATAATGTAAGAGGTAATTTTGTAATATAG
1 AAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAATTTTGTAATATAA
* *
1078094 CCGCTATAAATATACTGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATAT
66 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATAT
1078159 TGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTTAACGCAC
131 TGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTTAACGCAC
* *
1078208 AAAGTGTCGATCCCAAAAACATCGTAACCGATAATTATAATGTAATAGGTAATATTGTAATATAA
1 AAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAATTTTGTAATATAA
* * *
1078273 CTGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTAATAT
66 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATAT
*
1078338 TGTGTCAATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTTAACGCAC
131 TGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTTAACGCAC
* ** ** * * * *
1078387 AAAGTGTCGATACATTTTCAAAAAGTGTCGATTCCAAAAATATCGTAACCGATAATTA--TAATA
1 AAAGTGTCGAT-C----CCAAAAA-CATCGAAACCGATAAT-T-ATAA-TG-TAA-TAGGTAAT-
* **
1078450 TAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAA
54 T--T-TGTAA-----T-ATAAC--CGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAA
* *
1078515 CATGTATCGACACTTTTTAATATTGTGTCGATACTTTTTGTCTAGAATGGATGCCAAAAAGGGTG
108 CATGTATCGACACTTTTTAATATTGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTT
* *
1078580 AACGAAT
173 AACGCAC
*
1078587 AAAGTGTCGATATATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
1 AAA--GT-G------------------TCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
* * *
1078652 ATAGGTAATTTTGTAATATAACCGATATAAATATACCGTTTTTATGAGATAATAGGTCTACAACA
45 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACA
*
1078717 TGTATCGATACTTTTTAATATTGTGTCGATACTTTT
110 TGTATCGACACTTTTTAATATTGTGTCGATACTTTT
1078753 AAATAACTCA
Statistics
Matches: 450, Mismatches: 49, Indels: 71
0.79 0.09 0.12
Matches are distributed among these distances:
179 179 0.40
180 1 0.00
184 6 0.01
185 9 0.02
186 1 0.00
187 3 0.01
188 5 0.01
189 3 0.01
190 2 0.00
191 1 0.00
192 4 0.01
197 1 0.00
198 3 0.01
200 183 0.41
202 5 0.01
203 2 0.00
208 4 0.01
209 1 0.00
210 2 0.00
211 4 0.01
212 5 0.01
213 3 0.01
214 1 0.00
215 10 0.02
216 6 0.01
220 1 0.00
221 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (179 bp):
AAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAATTTTGTAATATAA
CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATAT
TGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTTAACGCAC
Found at i:1078497 original size:200 final size:200
Alignment explanation
Indices: 1078208--1078752 Score: 919
Period size: 200 Copynumber: 2.7 Consensus size: 200
1078198 GTTAACGCAC
*
1078208 AAAGTGTCGATCCCAAAAACATCGTAACCGATAATTATAATGTAATAGGTAATATTGTAATATAA
1 AAAGTGTCGATCCCAAAAACATCGTAACCGATAATTATAATGTAATAGGTAATTTTGTAATATAA
* *
1078273 CTGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTAATAT
66 CCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATAT
* * *
1078338 TGTGTCAATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTTAACGCACAAAGTGTCGATACATT
131 TGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGAACAAAGTGTCGATACATT
1078403 TTCAA
196 TTCAA
* * *
1078408 AAAGTGTCGATTCCAAAAATATCGTAACCGATAATTATAATATAATAGGTAATTTTGTAATATAA
1 AAAGTGTCGATCCCAAAAACATCGTAACCGATAATTATAATGTAATAGGTAATTTTGTAATATAA
*
1078473 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATAT
66 CCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATAT
* * *
1078538 TGTGTCGATACTTTTTGTCTAGAATGGATGCCAAAAAGGGTGAACGAATAAAGTGTCGATATATT
131 TGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGAACAAAGTGTCGATACATT
1078603 TTCAA
196 TTCAA
* *
1078608 AAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAA
1 AAAGTGTCGATCCCAAAAACATCGTAACCGATAATTATAATGTAATAGGTAATTTTGTAATATAA
* * * *
1078673 CCGATATAAATATACCGTTTTTATGAGATAATAGGTCTACAACATGTATCGATACTTTTTAATAT
66 CCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATAT
1078738 TGTGTCGATACTTTT
131 TGTGTCGATACTTTT
1078753 AAATAACTCA
Statistics
Matches: 323, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
200 323 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (200 bp):
AAAGTGTCGATCCCAAAAACATCGTAACCGATAATTATAATGTAATAGGTAATTTTGTAATATAA
CCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATAT
TGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGAACAAAGTGTCGATACATT
TTCAA
Found at i:1079550 original size:15 final size:15
Alignment explanation
Indices: 1079532--1079561 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1079522 TGGCACTTAA
1079532 AGATTTACCAAGAGC
1 AGATTTACCAAGAGC
1079547 AGATTTACCAAGAGC
1 AGATTTACCAAGAGC
1079562 GGTAGCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
AGATTTACCAAGAGC
Found at i:1080272 original size:211 final size:211
Alignment explanation
Indices: 1079908--1080328 Score: 824
Period size: 211 Copynumber: 2.0 Consensus size: 211
1079898 TGTGCTCTGC
1079908 CTCGAGGATATAGGCTATTGCACGCATCTAACTACTTGGTCCCGAAATATGAACGTATATCACAA
1 CTCGAGGATATAGGCTATTGCACGCATCTAACTACTTGGTCCCGAAATATGAACGTATATCACAA
1079973 CAACTATCCTTATATAAAATTAAAAACAATTCTTCAACAACTGAATACAACTATTATACGTAATG
66 CAACTATCCTTATATAAAATTAAAAACAATTCTTCAACAACTGAATACAACTATTATACGTAATG
1080038 TTCAATCATGCACTCCTTACGTTGGAGGGCTCTAAACCCTAAACCCTCAAAAGAAACTTGCCTTA
131 TTCAATCATGCACTCCTTACGTTGGAGGGCTCTAAACCCTAAACCCTCAAAAGAAACTTGCCTTA
1080103 CCAATTCCTAGCTTAA
196 CCAATTCCTAGCTTAA
* *
1080119 CTCGAGGATATAGGCTATTGCACGCATCTAACTACTTGGTCCTGAAATGTGAACGTATATCACAA
1 CTCGAGGATATAGGCTATTGCACGCATCTAACTACTTGGTCCCGAAATATGAACGTATATCACAA
1080184 CAACTATCCTTATATAAAATTAAAAACAATTCTTCAACAACTGAATACAACTATTATACGTAATG
66 CAACTATCCTTATATAAAATTAAAAACAATTCTTCAACAACTGAATACAACTATTATACGTAATG
1080249 TTCAATCATGCACTCCTTACGTTGGAGGGCTCTAAACCCTAAACCCTCAAAAGAAACTTGCCTTA
131 TTCAATCATGCACTCCTTACGTTGGAGGGCTCTAAACCCTAAACCCTCAAAAGAAACTTGCCTTA
1080314 CCAATTCCTAGCTTA
196 CCAATTCCTAGCTTA
1080329 CCATTTAGAC
Statistics
Matches: 208, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
211 208 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (211 bp):
CTCGAGGATATAGGCTATTGCACGCATCTAACTACTTGGTCCCGAAATATGAACGTATATCACAA
CAACTATCCTTATATAAAATTAAAAACAATTCTTCAACAACTGAATACAACTATTATACGTAATG
TTCAATCATGCACTCCTTACGTTGGAGGGCTCTAAACCCTAAACCCTCAAAAGAAACTTGCCTTA
CCAATTCCTAGCTTAA
Found at i:1080591 original size:17 final size:17
Alignment explanation
Indices: 1080565--1080598 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1080555 ATACGATTTA
* *
1080565 TAATTTTGTATGTGATG
1 TAATTATGTATGAGATG
1080582 TAATTATGTATGAGATG
1 TAATTATGTATGAGATG
1080599 AGAAAAGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (17 bp):
TAATTATGTATGAGATG
Found at i:1083382 original size:200 final size:197
Alignment explanation
Indices: 1083016--1083718 Score: 860
Period size: 198 Copynumber: 3.5 Consensus size: 197
1083006 ATTTTCTACA
* * *
1083016 AGTATCGA-CCAAAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTAACAATGTAACC
1 AGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACC
* * * * * * *
1083080 GGTATAAATATA-CTGATTAATTAGAAAACAGGTTAACATAATGTATCGACACTTGTGAAATTTG
66 GGTATAAATATACCGGTTTTATGAGAAAATAGG-TCACATAATGTATCGACACTTGTTAAATTTG
* *
1083144 TGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATTT
130 TGTCGATACTT-TTGTCCATAATGAATGCCC-AACGAGGTGCAAGCATAAAGTGTCGATACATTT
1083209 ATTAAA-
193 A--AAAT
* *
1083215 AGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACT
1 AGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACC
* * *
1083280 GATATAAATATACCGGTTTTATGAGAAAATAGGTCAGCATAAAGTATCGACACTTGTTAAATTTA
66 GGTATAAATATACCGGTTTTATGAGAAAATAGGTCA-CATAATGTATCGACACTTGTTAAATTTG
* * *
1083345 TGTCGATACATTTTGTCCATAATGAATGCCCAACGAGGTGCAAGAATAAAATGTCAATACATTTA
130 TGTCGATAC-TTTTGTCCATAATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACATTTA
1083410 AAAT
194 AAAT
* * * * * *
1083414 TGTATCGATCCCAAAAACATCGAAA-CGAAAATTACAATGTGATAGGTAAATTTACAATGTACCC
1 AGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACC
* * * * *
1083478 GGTATAAATATACCGGTTTTATGAGAAAATATGTCTAAATAATGTAGCGACACGTT-TTTAGTTT
66 GGTATAAATATACCGGTTTTATGAGAAAATAGGTC-ACATAATGTATCGACAC-TTGTTAAATTT
* *
1083542 GTGTCGATACTTTTTTCCAGAATGAAATATGAATGTCCAACGAGGTGCAAGCATAAAGTGTCGAT
129 GTGTCGATACTTTTGTCC---AT---A-ATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGAT
*
1083607 ACAGTTAAAAT
187 ACATTTAAAAT
* *
1083618 TGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTTACC
1 AGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACC
* **
1083683 TGTATAAATATACCGG-TTTACTTCGAAAATAGGTCA
66 GGTATAAATATACCGGTTTTA-TGAGAAAATAGGTCA
1083719 ATATAAGCGA
Statistics
Matches: 437, Mismatches: 51, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
197 7 0.02
198 98 0.22
199 34 0.08
200 96 0.22
201 67 0.15
202 2 0.00
203 1 0.00
204 72 0.16
205 60 0.14
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (197 bp):
AGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACC
GGTATAAATATACCGGTTTTATGAGAAAATAGGTCACATAATGTATCGACACTTGTTAAATTTGT
GTCGATACTTTTGTCCATAATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACATTTAAA
AT
Found at i:1085103 original size:29 final size:31
Alignment explanation
Indices: 1085062--1085123 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
1085052 AACCCGTGAC
* *
1085062 GACCACATTTTAATTAAA-CAAAACG-AAGT
1 GACCACATCTTAATTAAATAAAAACGAAAGT
1085091 GACCACATCTTAATTAAATAAAAACGAAAGT
1 GACCACATCTTAATTAAATAAAAACGAAAGT
1085122 GA
1 GA
1085124 TCTTATCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.59
30 6 0.21
31 6 0.21
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.23
Consensus pattern (31 bp):
GACCACATCTTAATTAAATAAAAACGAAAGT
Found at i:1085352 original size:23 final size:23
Alignment explanation
Indices: 1085322--1085370 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
1085312 TATGTCCTCT
1085322 CAAAAGATGCATGGAAAACACGA
1 CAAAAGATGCATGGAAAACACGA
1085345 CAAAAGATGCATGGAAAACACGA
1 CAAAAGATGCATGGAAAACACGA
1085368 CAA
1 CAA
1085371 CTTCTCGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.53, C:0.18, G:0.20, T:0.08
Consensus pattern (23 bp):
CAAAAGATGCATGGAAAACACGA
Found at i:1089482 original size:361 final size:353
Alignment explanation
Indices: 1088816--1089525 Score: 1064
Period size: 361 Copynumber: 2.0 Consensus size: 353
1088806 AGAAAGACTT
1088816 CTCAACTTTCTTTTGTGTTGACTGGGGATTACATTGCTTGAATAGGGGCCAATTAAGGTCGGCGA
1 CTCAACTTTCTTTTGTGTTGACTGGGGATTACATTGCTTGAATAGGGGCCAATTAAGGTCGGCGA
* * * * * * *
1088881 AGTGCGGCTTTCTACCAAGGTAATCAATTCTTTGTGCTCCTTTTGTTCTATAGAGGAGATTTGTA
66 AGAGCAGCTTTCAACCAAGGTAATCAATTCCTTGTGCTCCTTTTGTTCTATAGAAGAAATTCGTA
*
1088946 ATGTTAATGTAAAATCCAACATCAAAATAAGTGATCAATCAAGTTAGAGGTTATTGCCTTACCTA
131 ATGTTAATGTAAAATACAACATCAAAATAAGTGATCAATCAAGTTAGAGGTTATTGCCTTACCTA
* * * *
1089011 ACTTCCTTTCAGTCCCTCTATCTTTAATTTCAACTACCTCCATATCAATAGAACTTATGTCGGAT
196 ACTTCCTTTCAGTCCCTCTATCTATAACTTCAACAACCTCCATATCAATAGAACTTATATCGGAT
** *
1089076 TCCTCTGCTTTTACTTTCACTGCCCTATTAGAGGCAGCAGTTTCTTCGAGAGCAATGGTGGTTTT
261 TCCTCAACTTTTACTTTCACTGCCCTATTAGAGGCAGCAGTTTCTTCGAGAGCAATGGTGGATTT
1089141 TGCAACTAACCCTTCTGGTTTTATACTG
326 TGCAACTAACCCTTCTGGTTTTATACTG
*
1089169 CTCAACTTTCTTTTGTGTTGACTGGGGATTATATTGCTTGAATTGGGATAGGGGCCAATTAAGGT
1 CTCAACTTTCTTTTGTGTTGACTGGGGATTACATTGCTTG-A-----ATAGGGGCCAATTAAGGT
* * *
1089234 CGGCGATGAGCAGCTTTCAACCAAGGTTATCAATTCCTTGTGTTCCTTTTGTTCTATATAGAAGA
60 CGGCGAAGAGCAGCTTTCAACCAAGGTAATCAATTCCTTGTGCTCCTTTTGTTC--TATAGAAGA
*
1089299 AATTCGTAATGTTAATGTAAAATACAACATCAAAATAAGTGA-CGAATCAAGTTAGAGGTTATTT
123 AATTCGTAATGTTAATGTAAAATACAACATCAAAATAAGTGATC-AATCAAGTTAGAGGTTATTG
* * *
1089363 CCTTACCTAACTTCCTTTTAGTCCCTCTATCTATAACTTCAACAACCTCCATATCAGTAGAGCTT
187 CCTTACCTAACTTCCTTTCAGTCCCTCTATCTATAACTTCAACAACCTCCATATCAATAGAACTT
* * ** *
1089428 CTATCGGATTCCTCAACTTTTACTTTCACTGCTCTATTAGAGGC-GTTGGTTTCTTCGAGTGCAA
252 ATATCGGATTCCTCAACTTTTACTTTCACTGCCCTATTAGAGGCAG-CAGTTTCTTCGAGAGCAA
1089492 TGGTGGATTTTGCAACTAACCCTTCTGGTTTTAT
316 TGGTGGATTTTGCAACTAACCCTTCTGGTTTTAT
1089526 TGGTTGTGAA
Statistics
Matches: 319, Mismatches: 28, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
353 39 0.12
354 1 0.00
359 65 0.20
360 2 0.01
361 212 0.66
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (353 bp):
CTCAACTTTCTTTTGTGTTGACTGGGGATTACATTGCTTGAATAGGGGCCAATTAAGGTCGGCGA
AGAGCAGCTTTCAACCAAGGTAATCAATTCCTTGTGCTCCTTTTGTTCTATAGAAGAAATTCGTA
ATGTTAATGTAAAATACAACATCAAAATAAGTGATCAATCAAGTTAGAGGTTATTGCCTTACCTA
ACTTCCTTTCAGTCCCTCTATCTATAACTTCAACAACCTCCATATCAATAGAACTTATATCGGAT
TCCTCAACTTTTACTTTCACTGCCCTATTAGAGGCAGCAGTTTCTTCGAGAGCAATGGTGGATTT
TGCAACTAACCCTTCTGGTTTTATACTG
Found at i:1091382 original size:21 final size:21
Alignment explanation
Indices: 1091345--1091542 Score: 217
Period size: 21 Copynumber: 9.5 Consensus size: 21
1091335 GTTTCCAGAT
* *
1091345 TCGCAACGCGAAATTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
1091366 TCACAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
1091387 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
1091408 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
1091429 TCGCAATGCGAACTTAGACTA
1 TCGCAATGCGAACTTGGACTA
* *
1091450 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
1091471 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* * *
1091492 TCACAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
1091512 TCGCAATGCGAACTTGTA-AA
1 TCGCAATGCGAACTTGGACTA
1091532 TCGCAATGCGA
1 TCGCAATGCGA
1091543 TAGTCGAATT
Statistics
Matches: 154, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
20 32 0.21
21 120 0.78
22 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:1091425 original size:63 final size:63
Alignment explanation
Indices: 1091345--1091503 Score: 282
Period size: 63 Copynumber: 2.5 Consensus size: 63
1091335 GTTTCCAGAT
* * *
1091345 TCGCAACGCGAAATTGGACTATCACAATGCGAACTTGGACTATCGCAATGCGATAGTCGACTA
1 TCGCAATGCGAACTTGGACTATCACAATGCGAACTTAGACTATCGCAATGCGATAGTCGACTA
*
1091408 TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTAGACTATCGCAATGCGATAGTCGACTA
1 TCGCAATGCGAACTTGGACTATCACAATGCGAACTTAGACTATCGCAATGCGATAGTCGACTA
1091471 TCGCAATGCGAACTTGGACTATCACAATGCGAA
1 TCGCAATGCGAACTTGGACTATCACAATGCGAA
1091504 TATGTAAATC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 91 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (63 bp):
TCGCAATGCGAACTTGGACTATCACAATGCGAACTTAGACTATCGCAATGCGATAGTCGACTA
Found at i:1092315 original size:23 final size:22
Alignment explanation
Indices: 1092276--1092396 Score: 94
Period size: 21 Copynumber: 5.7 Consensus size: 22
1092266 ATTTTGGACT
*
1092276 ATCGCAA-CAAACTTGGAATAA
1 ATCGCAACCGAACTTGGAATAA
*
1092297 ATCGCAACGCGAACTTGGACT--
1 ATCGCAAC-CGAACTTGGAATAA
*
1092318 ATCGCAA-CGAATTTGGAATAA
1 ATCGCAACCGAACTTGGAATAA
* * * *
1092339 ATTGTAACACGAACTTCGACT--
1 ATCGCAAC-CGAACTTGGAATAA
*
1092360 ATCGCAA-TGAACTTGGAATAA
1 ATCGCAACCGAACTTGGAATAA
1092381 ATCGCAACGCGAACTT
1 ATCGCAAC-CGAACTT
1092397 AGACTATCGC
Statistics
Matches: 75, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
19 19 0.25
21 31 0.41
23 25 0.33
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (22 bp):
ATCGCAACCGAACTTGGAATAA
Found at i:1092316 original size:42 final size:42
Alignment explanation
Indices: 1092269--1092412 Score: 216
Period size: 42 Copynumber: 3.4 Consensus size: 42
1092259 CGTTGCGATT
*
1092269 TTGGACTATCGCAACAAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * * *
1092311 TTGGACTATCGCAACGAATTTGGAATAAATTGTAACACGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
1092353 TTCGACTATCGCAATGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
1092395 TTAGACTATCGCAACGAA
1 TTGGACTATCGCAACGAA
1092413 TTTTGGTTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:1092333 original size:19 final size:19
Alignment explanation
Indices: 1092269--1092412 Score: 90
Period size: 21 Copynumber: 6.9 Consensus size: 19
1092259 CGTTGCGATT
*
1092269 TTGGACTATCGCAACAAAC
1 TTGGACTATCGCAACGAAC
*
1092288 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
1092311 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
* * *
1092330 TTGGAATAAATTGTAACACGAAC
1 TTGGACT--ATCG-CA-ACGAAC
* *
1092353 TTCGACTATCGCAATGAAC
1 TTGGACTATCGCAACGAAC
*
1092372 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
1092395 TTAGACTATCGCAACGAA
1 TTGGACTATCGCAACGAA
1092413 TTTTGGTTAA
Statistics
Matches: 95, Mismatches: 18, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
19 30 0.32
20 1 0.01
21 34 0.36
22 1 0.01
23 29 0.31
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:1093523 original size:24 final size:23
Alignment explanation
Indices: 1093487--1093557 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 23
1093477 TTATATATAG
**
1093487 TAACTTAAAAAATATTTTTTGTAT
1 TAACTTATTAAATATTTTTT-TAT
1093511 TAACTTATTAAATATATTTTATTAT
1 TAACTTATTAAATAT-TTTT-TTAT
* *
1093536 TAATTTAATTTAAAGATTTTTT
1 TAACTT-A-TTAAATATTTTTT
1093558 ATTTTTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 13 0.33
25 13 0.33
26 6 0.15
27 7 0.18
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (23 bp):
TAACTTATTAAATATTTTTTTAT
Found at i:1093548 original size:27 final size:27
Alignment explanation
Indices: 1093494--1093581 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
1093484 TAGTAACTTA
* *
1093494 AAAAATATTTTTTGTATTAACTT-A-TT
1 AAAAATATTTTAT-TATTAATTTAATTT
*
1093520 AAATATATTTTATTATTAATTTAATTT
1 AAAAATATTTTATTATTAATTTAATTT
* * * * *
1093547 AAAGATTTTTTATTTTTATTTTCATTT
1 AAAAATATTTTATTATTAATTTAATTT
1093574 AAAAATAT
1 AAAAATAT
1093582 ATATTTTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 8 0.16
26 12 0.24
27 30 0.60
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (27 bp):
AAAAATATTTTATTATTAATTTAATTT
Found at i:1093750 original size:31 final size:31
Alignment explanation
Indices: 1093715--1093789 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
1093705 TGACCCGTAA
*
1093715 TGATCACCTCTTAATTAAATAAAAACAAAAG
1 TGATCACATCTTAATTAAATAAAAACAAAAG
* **
1093746 TGATCATATCTTAATTAAATAAAAATGAAAG
1 TGATCACATCTTAATTAAATAAAAACAAAAG
*
1093777 TGATCATATCTTA
1 TGATCACATCTTA
1093790 TTTTTTTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (31 bp):
TGATCACATCTTAATTAAATAAAAACAAAAG
Found at i:1103313 original size:39 final size:39
Alignment explanation
Indices: 1103244--1103380 Score: 177
Period size: 39 Copynumber: 3.5 Consensus size: 39
1103234 AACCAAAGCA
* * * *
1103244 GGACTTGCCA-CTCTTGACGCAGCAGAATGCTCATCATCC
1 GGACTTG-CAGCTCTCGATGCAACAGGATGCTCATCATCC
* *
1103283 GGACTTGCAACTCTCGATGTAACAGGATGCTCATCATCC
1 GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCATCC
* *
1103322 GGACTTGCAGCTCTCGATGCAGCAGGATGCTCATCACCC
1 GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCATCC
*
1103361 GGGCTTGCAGCTCTCGATGC
1 GGACTTGCAGCTCTCGATGC
1103381 TCCAACATGT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 2 0.02
39 85 0.98
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.23
Consensus pattern (39 bp):
GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCATCC
Found at i:1103395 original size:39 final size:39
Alignment explanation
Indices: 1103270--1103396 Score: 137
Period size: 39 Copynumber: 3.3 Consensus size: 39
1103260 ACGCAGCAGA
* * * * **
1103270 ATGCTCATCATCCGGACTTGCAACTCTCGATGTAACAGG
1 ATGCTCATCACCCGGACTTGCAGCTCTCGATGCACCAAC
* * **
1103309 ATGCTCATCATCCGGACTTGCAGCTCTCGATGCAGCAGG
1 ATGCTCATCACCCGGACTTGCAGCTCTCGATGCACCAAC
* *
1103348 ATGCTCATCACCCGGGCTTGCAGCTCTCGATGCTCCAAC
1 ATGCTCATCACCCGGACTTGCAGCTCTCGATGCACCAAC
*
1103387 ATGTTCATCA
1 ATGCTCATCA
1103397 ACTGCGCCTG
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
ATGCTCATCACCCGGACTTGCAGCTCTCGATGCACCAAC
Found at i:1103395 original size:78 final size:78
Alignment explanation
Indices: 1103244--1103396 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 78
1103234 AACCAAAGCA
* * **
1103244 GGACTTGCCACTCTTGACGCAGCAGAATGCTCATCATCCGGACTTGCAACTCTCGATGTAACAGG
1 GGACTTGCCACTCTCGACGCAGCAGAATGCTCATCACCCGGACTTGCAACTCTCGATGTAACAAC
1103309 ATGCTCATCATCC
66 ATGCTCATCATCC
* * * * *
1103322 GGACTTG-CAGCTCTCGATGCAGCAGGATGCTCATCACCCGGGCTTGCAGCTCTCGATGCT-CCA
1 GGACTTGCCA-CTCTCGACGCAGCAGAATGCTCATCACCCGGACTTGCAACTCTCGATG-TAACA
*
1103385 ACATGTTCATCA
64 ACATGCTCATCA
1103397 ACTGCGCCTG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 2 0.03
78 60 0.95
79 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (78 bp):
GGACTTGCCACTCTCGACGCAGCAGAATGCTCATCACCCGGACTTGCAACTCTCGATGTAACAAC
ATGCTCATCATCC
Found at i:1112118 original size:22 final size:22
Alignment explanation
Indices: 1112093--1112147 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1112083 TCAGGAGTTA
* *
1112093 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
1112115 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
1112137 CAGGAGTTATA
1 CAGGAGTTATA
1112148 ACAGCTGAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:1113440 original size:16 final size:16
Alignment explanation
Indices: 1113415--1113450 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
1113405 AACGTCTTTT
1113415 AAAACAA-TTTTAAGA
1 AAAACAATTTTTAAGA
1113430 AAAATCAATTTTTAAGA
1 AAAA-CAATTTTTAAGA
1113447 AAAA
1 AAAA
1113451 AGTGGCATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 3 0.16
17 12 0.63
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (16 bp):
AAAACAATTTTTAAGA
Found at i:1115232 original size:3 final size:3
Alignment explanation
Indices: 1115219--1115255 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
1115209 GTAAAGAAAG
*
1115219 TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1115256 TATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1115263 original size:2 final size:2
Alignment explanation
Indices: 1115256--1115284 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1115246 TAATAATAAT
1115256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1115285 TAAGACCCAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1115722 original size:39 final size:38
Alignment explanation
Indices: 1115660--1115734 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
1115650 TGGTTATCTA
*
1115660 GGGGTGACACGACTCCTACGTGATGAGGAGGACTGGTC
1 GGGGTGACACGACTCCTACGTGATGAGGACGACTGGTC
** *
1115698 GGGGATGACACGGTTCCTATGTGATGAGGACGACTGG
1 GGGG-TGACACGACTCCTACGTGATGAGGACGACTGG
1115735 CCATGTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 4 0.12
39 28 0.88
ACGTcount: A:0.21, C:0.19, G:0.40, T:0.20
Consensus pattern (38 bp):
GGGGTGACACGACTCCTACGTGATGAGGACGACTGGTC
Found at i:1115775 original size:130 final size:130
Alignment explanation
Indices: 1115493--1115879 Score: 494
Period size: 131 Copynumber: 3.0 Consensus size: 130
1115483 TGGGAAATAG
* *
1115493 CACGATTCCTACGTGATGAGGA-AGTCTGGCTATCTAAGGGTGACACGGCTCCTACGTGATGAGG
1 CACGATTCCTACGTGATGAGGATGGT-TGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGG
* ** *
1115557 AGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACG-GTAGGATATCTTTAGGGATGA
65 AGATCTGGTCGG-GGATGACACGGTTCCTACGTGATGAGGACGACT-GGCCATATTTAGGGATGA
1115621 TAA
128 TAA
** * *
1115624 CACGATTTTTAC-TCGATGAGGATGGTTGGTTATCTAGGGGTGACACGACTCCTACGTGATGAGG
1 CACGATTCCTACGT-GATGAGGATGGTTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGG
* * *
1115688 AGGA-CTGGTCGGGGATGACACGGTTCCTATGTGATGAGGACGACTGGCCATGTTTAAGGATGAT
65 A-GATCTGGTCGGGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATATTTAGGGATGAT
1115752 AA
129 AA
* * * * *
1115754 CACGGTTCCTACGTGATGAGGATGGCTGGTTATCTAAGGATGACATGGCTCATACGTGATGAGGA
1 CACGATTCCTACGTGATGAGGATGGTTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGA
* * * *
1115819 TATCTGGTCGGGGGATGACACGATTCCTACATGATGAGGATGACTGGCCATATTTAGGGAT
66 GATCTGGTC-GGGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATATTTAGGGAT
1115880 AATGGTTTCA
Statistics
Matches: 221, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
129 1 0.00
130 107 0.48
131 109 0.49
132 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (130 bp):
CACGATTCCTACGTGATGAGGATGGTTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGA
GATCTGGTCGGGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATATTTAGGGATGATAA
Found at i:1115988 original size:37 final size:37
Alignment explanation
Indices: 1115947--1116058 Score: 95
Period size: 37 Copynumber: 3.3 Consensus size: 37
1115937 CTCAAAGGTT
1115947 TTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTG
* **
1115984 TTTCAAGGGAAA------C-A-A-ACTCAAATA-TTT-
1 TTTCAAGAGAAATTGTCTCAAGAGAGACAAA-ACTTTG
1116011 TTT-AAGAGAAATTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTG
*
1116047 TTTCAAGGGAAA
1 TTTCAAGAGAAA
1116059 CAAACTCAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 26
0.62 0.08 0.30
Matches are distributed among these distances:
26 7 0.13
27 3 0.05
28 8 0.15
29 2 0.04
30 1 0.02
31 1 0.02
32 1 0.02
33 1 0.02
34 2 0.04
35 8 0.15
36 3 0.05
37 18 0.33
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (37 bp):
TTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTG
Done.