Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 3 of 373
Found at i:730562 original size:16 final size:16
Alignment explanation
Indices: 730541--730609 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
730531 GATTAGCTAT
730541 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
730557 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
730574 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
730590 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
730606 TACA
1 TACA
730610 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:730583 original size:33 final size:32
Alignment explanation
Indices: 730541--730609 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
730531 GATTAGCTAT
730541 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
730574 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
730606 TACA
1 TACA
730610 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:736031 original size:15 final size:15
Alignment explanation
Indices: 736011--736042 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
736001 TACTTGTTCA
*
736011 ATACCTTGTGTTTTG
1 ATACCTTATGTTTTG
736026 ATACCTTATGTTTTG
1 ATACCTTATGTTTTG
736041 AT
1 AT
736043 GTTCTGATGA
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:0.19, C:0.12, G:0.16, T:0.53
Consensus pattern (15 bp):
ATACCTTATGTTTTG
Found at i:739146 original size:19 final size:21
Alignment explanation
Indices: 739122--739165 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
739112 TAAAATTTTG
*
739122 TTTAAA-TATATCTCTATT-T
1 TTTAAAGTATATCTATATTAT
739141 TTTAAAGTTATATCTATATTAT
1 TTTAAAG-TATATCTATATTAT
739163 TTT
1 TTT
739166 TAATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTAAAGTATATCTATATTAT
Found at i:739424 original size:31 final size:30
Alignment explanation
Indices: 739389--739491 Score: 91
Period size: 32 Copynumber: 3.3 Consensus size: 30
739379 TTAACATTTT
*
739389 ATTTAAAATTTACATTATAATAGTATTATAA
1 ATTTAAAATTTACATTATAA-AATATTATAA
* *
739420 ATTTAAAATTTATATGTTATAAATTA-TATAA
1 ATTTAAAATTTACA--TTATAAAATATTATAA
* * *
739451 TATATAAAAATAACATAATATAAAATATTATAA
1 -ATTTAAAATTTACAT--TATAAAATATTATAA
739484 ATTTAAAA
1 ATTTAAAA
739492 ACTAAATCGA
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
30 1 0.02
31 18 0.31
32 28 0.48
33 11 0.19
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
ATTTAAAATTTACATTATAAAATATTATAA
Found at i:742261 original size:25 final size:24
Alignment explanation
Indices: 742212--742261 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
742202 TAAAAATTGC
*
742212 ATATAAAAATAATTATGTTTCTTTA
1 ATATAAAAATAATTATG-TTATTTA
742237 ATATAAAAATAAATTGATG-TATTTA
1 ATATAAAAAT-AATT-ATGTTATTTA
742262 TTTTTTAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 15 0.68
26 4 0.18
27 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (24 bp):
ATATAAAAATAATTATGTTATTTA
Found at i:742316 original size:31 final size:32
Alignment explanation
Indices: 742281--742357 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
742271 ATGTATATGA
*
742281 TTGAATTAAAATTAAAGTTTCATATATACA-T
1 TTGAATTAAAATTAAAGTTTCATATATAAAGT
* *
742312 TTGAATCACAATTAAAGTTTCATATATAAAGT
1 TTGAATTAAAATTAAAGTTTCATATATAAAGT
*
742344 TTAATATTAAAATT
1 TTGA-ATTAAAATT
742358 TATGTATCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 27 0.71
32 4 0.11
33 7 0.18
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (32 bp):
TTGAATTAAAATTAAAGTTTCATATATAAAGT
Found at i:744641 original size:118 final size:117
Alignment explanation
Indices: 744457--744751 Score: 378
Period size: 118 Copynumber: 2.5 Consensus size: 117
744447 AAGTGCAACT
* * *
744457 GCTATGCTAGTGCAATGAAGAACATATTGACATTGAACTTGAGATATGCAAAAGAATGACAACAT
1 GCTATGCTAGTGCAATGAAGAACATA-TCACATTAAACTTGAGATATGCAAAAGAATAACAACAT
*
744522 ATGCAGC-AATAGCATAAGAACCGGAAAGAACCATCACCAGTAAACATCAAACC
65 ATGCAGCAAATAGCATAAGAACCGGAAAGAACCATCACCAATAAACATCAAA-C
* * * *
744575 GCTATGCTAGTGCAATGAAGGACATATCACCATTAAAGTCGAGATATGCAAACA-AATAACATCA
1 GCTATGCTAGTGCAATGAAGAACATATCA-CATTAAACTTGAGATATGCAAA-AGAATAACAACA
* ** * * * * *
744639 TATGCAGCAAATTGTGTAAGAACTGGAAAGAATCATCACTAATATACATCGAAC
64 TATGCAGCAAATAGCATAAGAACCGGAAAGAACCATCACCAATAAACATCAAAC
*
744693 GCTATGCTAGTGCAATGAAGAACATATCAACATTAAACTTGAGATATGCAAATGAATAA
1 GCTATGCTAGTGCAATGAAGAACATATC-ACATTAAACTTGAGATATGCAAAAGAATAA
744752 TAAGTTAATA
Statistics
Matches: 152, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
117 2 0.01
118 113 0.74
119 37 0.24
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (117 bp):
GCTATGCTAGTGCAATGAAGAACATATCACATTAAACTTGAGATATGCAAAAGAATAACAACATA
TGCAGCAAATAGCATAAGAACCGGAAAGAACCATCACCAATAAACATCAAAC
Found at i:746283 original size:3 final size:3
Alignment explanation
Indices: 746275--746305 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
746265 ATTGAAGATT
746275 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
746306 TACCATGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:751040 original size:31 final size:31
Alignment explanation
Indices: 751004--751067 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
750994 TCGTAAATAT
* *
751004 GTCATTAAAATATTTAAATTTTTTTAATTAA
1 GTCATTAAAATATTTAAAGTTTTTCAATTAA
* *
751035 GTCATTAAAATATTTGAAGTTTTTCATTTAA
1 GTCATTAAAATATTTAAAGTTTTTCAATTAA
751066 GT
1 GT
751068 TTCTTAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.50
Consensus pattern (31 bp):
GTCATTAAAATATTTAAAGTTTTTCAATTAA
Found at i:754213 original size:18 final size:18
Alignment explanation
Indices: 754192--754302 Score: 97
Period size: 18 Copynumber: 6.4 Consensus size: 18
754182 AAGTTTTTTT
*
754192 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
*
754210 AACACGAGAA--TTTGTA
1 AACACGAGAATTTTTGAA
* *
754226 AACACGAAAATTTTAG-A
1 AACACGAGAATTTTTGAA
* *
754243 AACATGAAAATTTTT-AA
1 AACACGAGAATTTTTGAA
* *
754260 AACACGACATTTTTTTG-A
1 AACACGAGA-ATTTTTGAA
*
754278 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
754296 AACACGA
1 AACACGA
754303 ATTTTTTTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
16 14 0.19
17 28 0.38
18 32 0.43
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:754223 original size:16 final size:16
Alignment explanation
Indices: 754204--754266 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
754194 CACGGGAATT
*
754204 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
754220 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
* *
754236 TTTTAGAAACATGAAAA
1 TTTGA-AAACACGAAAA
*
754253 TTTTTAAAACACGA
1 -TTTGAAAACACGA
754267 CATTTTTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 17 0.44
17 17 0.44
18 5 0.13
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:754262 original size:17 final size:17
Alignment explanation
Indices: 754169--754303 Score: 87
Period size: 18 Copynumber: 7.9 Consensus size: 17
754159 GTATTTCTTT
* *
754169 TTTTTTAAA-ACGAAAG
1 TTTTTAAAACACGAAAA
** **
754185 TTTTTTTAACACGGGAA
1 TTTTTAAAACACGAAAA
*
754202 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
*
754220 TTTGT-AAACACGAAAA
1 TTTTTAAAACACGAAAA
*
754236 -TTTTAGAAACATGAAAA
1 TTTTTA-AAACACGAAAA
**
754253 TTTTTAAAACACGACATT
1 TTTTTAAAACACGA-AAA
* **
754271 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAAAA
754288 TTTTTGAAAACACGAA
1 TTTTT-AAAACACGAA
754304 TTTTTTTTAT
Statistics
Matches: 90, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
15 3 0.03
16 18 0.20
17 31 0.34
18 38 0.42
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:754290 original size:19 final size:18
Alignment explanation
Indices: 754253--754337 Score: 70
Period size: 18 Copynumber: 4.7 Consensus size: 18
754243 AACATGAAAA
*
754253 TTTTTAAAACAC-GACATT
1 TTTTTGAAACACGGA-ATT
754271 TTTTTGAAACACGGGAA--
1 TTTTTGAAACAC-GGAATT
754288 TTTTTGAAAACAC-GAATT
1 TTTTTG-AAACACGGAATT
* **
754306 TTTTTTATTCACGAGAATT
1 TTTTTGAAACACG-GAATT
754325 TTTTTGAAACACG
1 TTTTTGAAACACG
754338 ATTTTTCTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
16 3 0.06
17 10 0.19
18 22 0.42
19 16 0.30
20 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (18 bp):
TTTTTGAAACACGGAATT
Found at i:754324 original size:35 final size:35
Alignment explanation
Indices: 754209--754349 Score: 112
Period size: 35 Copynumber: 4.1 Consensus size: 35
754199 GAATTTTTGA
* ** **
754209 AAACACGAGAA--TTTGTAAACACGAAAATTTTAG
1 AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
* * *
754242 AAACATGAAAATTTTT-AAAACACGACATTTTTTTG
1 AAACACGAGAATTTTTGAAAACACGA-ATTTTTTTT
*
754277 AAACACGGGAATTTTTGAAAACACGAATTTTTTTT
1 AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
**
754312 ATTCACGAGAATTTTTTTG-AAACACG-ATTTTTCTTT
1 AAACACGAGAA--TTTTTGAAAACACGAATTTTT-TTT
754348 AA
1 AA
754350 CAAATACCGT
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
33 9 0.10
34 8 0.09
35 44 0.51
36 20 0.23
37 6 0.07
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (35 bp):
AAACACGAGAATTTTTGAAAACACGAATTTTTTTT
Found at i:754338 original size:19 final size:19
Alignment explanation
Indices: 754253--754338 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
754243 AACATGAAAA
* *
754253 TTTTTAAAACACGA-CATT
1 TTTTTGAAACACGAGAATT
*
754271 TTTTTGAAACACGGGAA--
1 TTTTTGAAACACGAGAATT
754288 TTTTTGAAA-AC-ACGAATT
1 TTTTTGAAACACGA-GAATT
* **
754306 TTTTTTATTCACGAGAATT
1 TTTTTGAAACACGAGAATT
754325 TTTTTGAAACACGA
1 TTTTTGAAACACGA
754339 TTTTTCTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
16 5 0.10
17 9 0.17
18 18 0.35
19 19 0.37
20 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTTTGAAACACGAGAATT
Found at i:754932 original size:11 final size:11
Alignment explanation
Indices: 754916--754942 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
754906 GTTTTTATTT
754916 TTTTTAATTAC
1 TTTTTAATTAC
754927 TTTTTAATTAC
1 TTTTTAATTAC
754938 TTTTT
1 TTTTT
754943 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAC
Found at i:754953 original size:10 final size:10
Alignment explanation
Indices: 754940--754981 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
754930 TTAATTACTT
754940 TTTTTCTTTC
1 TTTTTCTTTC
754950 TTTTTCTTTC
1 TTTTTCTTTC
*
754960 -TCTT-TTT-
1 TTTTTCTTTC
754967 TTTTTCTTTC
1 TTTTTCTTTC
754977 TTTTT
1 TTTTT
754982 TCTTCTTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
8 6 0.22
9 6 0.22
10 15 0.56
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:754959 original size:14 final size:13
Alignment explanation
Indices: 754938--754993 Score: 69
Period size: 13 Copynumber: 4.1 Consensus size: 13
754928 TTTTAATTAC
754938 TTTTTTTCTTTCT
1 TTTTTTTCTTTCT
754951 TTTTCTTTCTCTT-T
1 TTTT-TTTCT-TTCT
754965 TTTTTTTCTTTCT
1 TTTTTTTCTTTCT
754978 TTTTTCTTCTTCTCT
1 TTTTT-TTCTT-TCT
754993 T
1 T
754994 CTTCTTGTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.05
13 15 0.39
14 15 0.39
15 6 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTCTTTCT
Found at i:754972 original size:17 final size:16
Alignment explanation
Indices: 754950--754996 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
754940 TTTTTCTTTC
754950 TTTTTCTTTCTCTTTTT
1 TTTTTCTTTCT-TTTTT
754967 TTTTTCTTTCTTTTTT
1 TTTTTCTTTCTTTTTT
*
754983 CTTCTTCTCTTCTT
1 -TTTTTCT-TTCTT
754997 CTTGTCTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 5 0.19
17 17 0.63
18 5 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCTTTCTTTTTT
Found at i:755603 original size:30 final size:29
Alignment explanation
Indices: 755563--755664 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 29
755553 ATTTAGGATT
755563 AAAATGAAATTTAATAAAAGTTTAGGGGTC
1 AAAATGAAATTTAA-AAAAGTTTAGGGGTC
* * *
755593 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAA-AAAGTTTAGGGGTC
*
755623 AAAATGAAATTTAGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTA-AAAAAGTTTAGGGGTC
*
755653 AAAATGCAATTT
1 AAAATGAAATTT
755665 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.02
30 60 0.97
31 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (29 bp):
AAAATGAAATTTAAAAAAGTTTAGGGGTC
Found at i:755685 original size:14 final size:15
Alignment explanation
Indices: 755660--755694 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
755650 GTCAAAATGC
755660 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
755675 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
755689 AATTTT
1 AATTTT
755695 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:761501 original size:27 final size:27
Alignment explanation
Indices: 761463--761519 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
761453 GGATTTAGTA
*
761463 CTTAAATTTAATTTGGTCATTCTAGCC
1 CTTAAATTTAATTTGGCCATTCTAGCC
*
761490 CTTAAATTTAATTTGGCCATTCTAGTC
1 CTTAAATTTAATTTGGCCATTCTAGCC
761517 CTT
1 CTT
761520 GGTACTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.46
Consensus pattern (27 bp):
CTTAAATTTAATTTGGCCATTCTAGCC
Found at i:764217 original size:11 final size:11
Alignment explanation
Indices: 764185--764232 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
764175 CAAACCCTTT
*
764185 CTTCCTCTTCA
1 CTTCCTCTTCC
764196 CTTCCTCTTCC
1 CTTCCTCTTCC
764207 CTTCCTCTTCC
1 CTTCCTCTTCC
* *
764218 CCTCCTCTCCC
1 CTTCCTCTTCC
764229 CTTC
1 CTTC
764233 TATGAATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.42
Consensus pattern (11 bp):
CTTCCTCTTCC
Found at i:775150 original size:6 final size:6
Alignment explanation
Indices: 775139--775172 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
775129 TACATTTTTC
775139 TTGCTA TTGCTA TTGCTA TTGCTA TTGCTA TTGC
1 TTGCTA TTGCTA TTGCTA TTGCTA TTGCTA TTGC
775173 AATAGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.50
Consensus pattern (6 bp):
TTGCTA
Found at i:776291 original size:22 final size:22
Alignment explanation
Indices: 776266--776309 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
776256 TCGATGCGTG
776266 TTAGCATACCAAGTAATAGTTA
1 TTAGCATACCAAGTAATAGTTA
776288 TTAGCATACCAAGTAATAGTTA
1 TTAGCATACCAAGTAATAGTTA
776310 GCTTAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (22 bp):
TTAGCATACCAAGTAATAGTTA
Found at i:781257 original size:24 final size:24
Alignment explanation
Indices: 781225--781276 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
781215 TTTTTTTCTT
* *
781225 TTTTAGTCACCCAGTTAGTAGTTA
1 TTTTAGTCACCAAATTAGTAGTTA
781249 TTTTAGTCACCAAATTAGTAGTTA
1 TTTTAGTCACCAAATTAGTAGTTA
781273 TTTT
1 TTTT
781277 TTTTTTGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (24 bp):
TTTTAGTCACCAAATTAGTAGTTA
Found at i:782780 original size:44 final size:44
Alignment explanation
Indices: 782712--782870 Score: 192
Period size: 44 Copynumber: 3.5 Consensus size: 44
782702 TGAGTACTTC
* * *
782712 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATG
1 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATG
782756 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA--TG
* * *
782802 ATCAGAGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATT
1 -T----GATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATG
*
782851 TGATCAGTGACAAGTGATAA
1 TGATAAGTGACAAGTGATAA
782871 ATGTGATCAG
Statistics
Matches: 99, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
44 55 0.56
46 2 0.02
47 1 0.01
48 1 0.01
49 1 0.01
51 39 0.39
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.30
Consensus pattern (44 bp):
TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATG
Found at i:782868 original size:51 final size:51
Alignment explanation
Indices: 782755--782870 Score: 196
Period size: 51 Copynumber: 2.3 Consensus size: 51
782745 CTACACTTAT
* *
782755 GTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA
1 GTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA
* *
782806 GAGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCA
1 GTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA
782857 GTGACAAGTGATAA
1 GTGACAAGTGATAA
782871 ATGTGATCAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (51 bp):
GTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA
Found at i:784680 original size:28 final size:29
Alignment explanation
Indices: 784640--784695 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
784630 TAAATACAAA
*
784640 ATCTAAGGCTTAAAATTA-TTTAATTTTG
1 ATCTAAGGCTTAAAATCATTTTAATTTTG
784668 ATCTAATGG-TTAAAATCATTTTAATTTT
1 ATCTAA-GGCTTAAAATCATTTTAATTTT
784696 TATGGTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (29 bp):
ATCTAAGGCTTAAAATCATTTTAATTTTG
Found at i:785466 original size:6 final size:6
Alignment explanation
Indices: 785448--785501 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
785438 TCCAATAAAC
* * *
785448 TATACA TACACA TATACA TATTCA TATACATA TATATA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATAC--A TATACA TATACA TATACA
785498 TATA
1 TATA
785502 GTAATCATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 35 0.88
8 5 0.12
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (6 bp):
TATACA
Found at i:785482 original size:20 final size:20
Alignment explanation
Indices: 785448--785501 Score: 76
Period size: 18 Copynumber: 2.8 Consensus size: 20
785438 TCCAATAAAC
*
785448 TATACATACACATATACATA
1 TATACATATACATATACATA
*
785468 T-T-CATATACATATATATA
1 TATACATATACATATACATA
785486 TATACATATACATATA
1 TATACATATACATATA
785502 GTAATCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.50
19 2 0.07
20 13 0.43
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (20 bp):
TATACATATACATATACATA
Found at i:785513 original size:20 final size:19
Alignment explanation
Indices: 785448--785514 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
785438 TCCAATAAAC
* *
785448 TATA-CATACACATATACA
1 TATATCATATACATATATA
785466 TAT-TCATATACATATATA
1 TATATCATATACATATATA
785484 TATATACATATACATATAGTA
1 TATAT-CATATACATATA-TA
785505 -ATCATCATAT
1 TAT-ATCATAT
785515 CCAAAAACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 18 0.43
19 1 0.02
20 19 0.45
21 4 0.10
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.37
Consensus pattern (19 bp):
TATATCATATACATATATA
Found at i:785577 original size:6 final size:6
Alignment explanation
Indices: 785566--785612 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
785556 AATAAACTAT
* *
785566 ACATGC ACATGC ACATAC ACATAC ACATAC ACATAC ACATAC ACATA
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATA
785613 TTCATATAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.47, C:0.32, G:0.04, T:0.17
Consensus pattern (6 bp):
ACATAC
Found at i:785655 original size:119 final size:115
Alignment explanation
Indices: 785366--785703 Score: 464
Period size: 119 Copynumber: 2.9 Consensus size: 115
785356 AAAAAAACAT
* *
785366 ACATATACATATACATATAGTAATCATCATTTAAAAAAACAGATCAAACTAGCATATAGTGTTGA
1 ACATATACATATACATATAGTAATCATCATATAAAAAAAC--ATCAAACTAGCATATAGTATTGA
* * * * * * *
785431 TCATAGATCCAATAAACTATACATACACATATACATATTCATATACATATAT
64 TCATAGATTCAATAAACTATACATACACACATACACATACACATACACATAC
* **
785483 ATATATACATATACATATAGTAATCATCATATCCAAAAACATCAAACTAGCATATAGTATTGATC
1 ACATATACATATACATATAGTAATCATCATATAAAAAAACATCAAACTAGCATATAGTATTGATC
785548 ATAGATTCAATAAACTATACATGCACATGCACATACACATACACATACACATAC
66 ATAGATTCAATAAACTATACAT--ACA--CACATACACATACACATACACATAC
* *
785602 ACATACACATATTCATATAGTAATCATCATATAAAAAAACATCAAACTAGCATATAGTATTGATC
1 ACATATACATATACATATAGTAATCATCATATAAAAAAACATCAAACTAGCATATAGTATTGATC
* *
785667 ATAGATTGAATAAACTATACATA-A-ACATACATATACA
66 ATAGATTCAATAAACTATACATACACACATACACATACA
785704 TATATAGTAG
Statistics
Matches: 198, Mismatches: 19, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
113 12 0.06
115 45 0.23
116 1 0.01
117 40 0.20
119 100 0.51
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.29
Consensus pattern (115 bp):
ACATATACATATACATATAGTAATCATCATATAAAAAAACATCAAACTAGCATATAGTATTGATC
ATAGATTCAATAAACTATACATACACACATACACATACACATACACATAC
Found at i:788547 original size:66 final size:65
Alignment explanation
Indices: 788462--788657 Score: 250
Period size: 66 Copynumber: 3.0 Consensus size: 65
788452 CATGTTTTAT
788462 ACAATG-TCTATAACTATACATAGCCCATTCCCAACCCTTAAATAAGAGGATAATGCGCTTCAGC
1 ACAATGCT-TATAACTATACATAGCCC-TTCCCAACCCTTAAATAAGAGGATAATGCGCTTCAGC
788526 AC
64 AC
* * * * *
788528 ACAATGCTTATAACAATACATAGCTTCTCCCCAACCCTTAAATAAAAGGATAATGCGCTTCAGCG
1 ACAATGCTTATAACTATACATAGC-CCTTCCCAACCCTTAAATAAGAGGATAATGCGCTTCAGCA
788593 C
65 C
* * * * * *
788594 ACAATGCCTATAACTTTACATAACCCCTCCTTAACCCTTAAATAAGAGGATAATGCGTTTCAGC
1 ACAATGCTTATAACTATACATAGCCCTTCC-CAACCCTTAAATAAGAGGATAATGCGCTTCAGC
788658 TCATTCGAAC
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
65 3 0.03
66 107 0.96
67 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.26
Consensus pattern (65 bp):
ACAATGCTTATAACTATACATAGCCCTTCCCAACCCTTAAATAAGAGGATAATGCGCTTCAGCAC
Found at i:789075 original size:17 final size:20
Alignment explanation
Indices: 789053--789104 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
789043 TAAATTTTTT
789053 TATATTTT-A-TTAATT-TA
1 TATATTTTAATTTAATTATA
789070 TATATTTTAATTTTAATTATA
1 TATATTTTAA-TTTAATTATA
789091 TATATTTTTAATTT
1 TATA-TTTTAATTT
789105 CATAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.27
18 1 0.03
20 6 0.20
21 9 0.30
22 6 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATATTTTAATTTAATTATA
Found at i:789082 original size:23 final size:22
Alignment explanation
Indices: 789062--789104 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
789052 TTATATTTTA
789062 TTAATT-TATATA-TTTTAATT
1 TTAATTATATATATTTTTAATT
789082 TTAATTATATATATTTTTAATT
1 TTAATTATATATATTTTTAATT
789104 T
1 T
789105 CATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.29
21 6 0.29
22 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAATTATATATATTTTTAATT
Found at i:789282 original size:18 final size:18
Alignment explanation
Indices: 789259--789307 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 18
789249 AAAAATGCTT
*
789259 TTTTTATTAATTTATATA
1 TTTTTATTAATTTATAAA
789277 TTTTTA--AAGTTT-TAAA
1 TTTTTATTAA-TTTATAAA
*
789293 TTTTTTTTAATTTAT
1 TTTTTATTAATTTAT
789308 GTCTGCCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATTAATTTATAAA
Found at i:790588 original size:31 final size:29
Alignment explanation
Indices: 790550--790619 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 29
790540 ATCCCAAAAC
790550 TATACATGAACTATG-GTTTAATGTGCAATTT
1 TATACATGAACTATGAG-TT--TGTGCAATTT
*
790581 TATACATGAACTTTGAGTTTGTGCAATTT
1 TATACATGAACTATGAGTTTGTGCAATTT
790610 TATACATGAA
1 TATACATGAA
790620 ATTTTGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 20 0.54
31 16 0.43
32 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGAGTTTGTGCAATTT
Found at i:790638 original size:30 final size:29
Alignment explanation
Indices: 790575--790638 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
790565 GTTTAATGTG
*
790575 CAATTTTATACATGAACTTTGAGTTTGTG
1 CAATTTTATACATGAACTTTGAGTTTGTC
*
790604 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTTTATACATG-AACTTTGAGTTTG-TC
790634 CAATT
1 CAATT
790639 CTTGTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (29 bp):
CAATTTTATACATGAACTTTGAGTTTGTC
Found at i:790856 original size:29 final size:30
Alignment explanation
Indices: 790824--790882 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
790814 TCACGTGTAT
*
790824 AATTG-CATCAAATTAAAGTTCATATATAC
1 AATTGACATCAAATTAAAATTCATATATAC
* *
790853 AATTGCACATTAAATTAAAATTCATGTATA
1 AATTG-ACATCAAATTAAAATTCATATATA
790883 ATTTTGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
31 20 0.80
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.36
Consensus pattern (30 bp):
AATTGACATCAAATTAAAATTCATATATAC
Found at i:790885 original size:29 final size:27
Alignment explanation
Indices: 790819--790885 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
790809 GAGTTTCACG
*
790819 TGTATAATTGCATCAAATTAAAGTTCA
1 TGTATAATTGCATCAAATTAAAATTCA
* *
790846 TATATACAATTGCACATTAAATTAAAATTCA
1 TGTAT--AATTG--CATCAAATTAAAATTCA
790877 TGTATAATT
1 TGTATAATT
790886 TTGAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 4 0.12
29 9 0.28
31 19 0.59
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.39
Consensus pattern (27 bp):
TGTATAATTGCATCAAATTAAAATTCA
Found at i:796406 original size:15 final size:15
Alignment explanation
Indices: 796388--796417 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
796378 TTAGTCCCAT
796388 TGTTATTATTATTAC
1 TGTTATTATTATTAC
796403 TGTTATTATTATTAC
1 TGTTATTATTATTAC
796418 CTATTTATTT
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:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (15 bp):
TGTTATTATTATTAC
Found at i:811175 original size:16 final size:15
Alignment explanation
Indices: 811149--811186 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
811139 TATATCTTAC
*
811149 TTATTTATATACCCT
1 TTATATATATACCCT
811164 TGTATATATATACCCT
1 T-TATATATATACCCT
811180 TTATATA
1 TTATATA
811187 CTTTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (15 bp):
TTATATATATACCCT
Found at i:823468 original size:19 final size:19
Alignment explanation
Indices: 823444--823481 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
823434 GTACTAGGAG
823444 TCAGATTACATTCTGTCTC
1 TCAGATTACATTCTGTCTC
823463 TCAGATTACATTCTGTCTC
1 TCAGATTACATTCTGTCTC
823482 CTCTACTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (19 bp):
TCAGATTACATTCTGTCTC
Found at i:830725 original size:8 final size:8
Alignment explanation
Indices: 830714--830740 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
830704 TAAAGAGTTA
830714 AGAGACAG
1 AGAGACAG
830722 AGAGACAG
1 AGAGACAG
830730 AGAGACAG
1 AGAGACAG
830738 AGA
1 AGA
830741 ATAAAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.11, G:0.37, T:0.00
Consensus pattern (8 bp):
AGAGACAG
Found at i:832212 original size:14 final size:15
Alignment explanation
Indices: 832183--832220 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
832173 TTAATTTTGG
832183 TTAAAATATGTAATT
1 TTAAAATATGTAATT
*
832198 TTAAAAT-TTTAATT
1 TTAAAATATGTAATT
832212 TTAAAATAT
1 TTAAAATAT
832221 CTTTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAAAATATGTAATT
Found at i:834858 original size:22 final size:24
Alignment explanation
Indices: 834827--834876 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
834817 ATCATTAAGA
834827 TAAATATTGTTTATC-TTA-ATATT
1 TAAATATTG-TTATCATTAGATATT
*
834850 TAAAT-TTGTTATCATTAGATTTT
1 TAAATATTGTTATCATTAGATATT
834873 TAAA
1 TAAA
834877 AATTATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 6 0.25
23 13 0.54
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
TAAATATTGTTATCATTAGATATT
Found at i:840242 original size:31 final size:30
Alignment explanation
Indices: 840204--840301 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 30
840194 TTACTATATC
840204 ATTTGGTACTTAAATTTAGTTTTAATGTTCA
1 ATTTGGTACTTAAATTT-GTTTTAATGTTCA
840235 ATTTGGTACTT-AATTT-TTTT--TGTTTCA
1 ATTTGGTACTTAAATTTGTTTTAATG-TTCA
* * * * *
840262 ATTTGATACTTAAGTTTGGGTTCAATATTCA
1 ATTTGGTACTTAAATTT-GTTTTAATGTTCA
840293 ATTTGGTAC
1 ATTTGGTAC
840302 CCAGACCAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
26 2 0.04
27 14 0.25
28 8 0.15
30 7 0.13
31 23 0.42
32 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (30 bp):
ATTTGGTACTTAAATTTGTTTTAATGTTCA
Found at i:840261 original size:27 final size:28
Alignment explanation
Indices: 840204--840274 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
840194 TTACTATATC
840204 ATTTGGTACTTAAATTTAGTTTTAATGTTCA
1 ATTTGGTACTT-AATTTA-TTTT-ATGTTCA
840235 ATTTGGTACTTAATTT-TTTT-TGTTTCA
1 ATTTGGTACTTAATTTATTTTATG-TTCA
*
840262 ATTTGATACTTAA
1 ATTTGGTACTTAA
840275 GTTTGGGTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 2 0.05
27 16 0.42
28 4 0.11
30 5 0.13
31 11 0.29
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (28 bp):
ATTTGGTACTTAATTTATTTTATGTTCA
Found at i:841151 original size:26 final size:26
Alignment explanation
Indices: 841120--841173 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
841110 CCAATTTTAC
*
841120 TTGGCTTTTAAGATTTTTATGATTTT
1 TTGGCTTTTAAGATTTTTATAATTTT
841146 TTGGCTTTTAAGATTTTTATAATTTT
1 TTGGCTTTTAAGATTTTTATAATTTT
841172 TT
1 TT
841174 AATTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.20, C:0.04, G:0.13, T:0.63
Consensus pattern (26 bp):
TTGGCTTTTAAGATTTTTATAATTTT
Found at i:841342 original size:32 final size:32
Alignment explanation
Indices: 841297--841368 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
841287 AAAATTGTAC
* *
841297 CACGTCATTATTTTAATTTTATTTTTATTTTT
1 CACGTAATAATTTTAATTTTATTTTTATTTTT
841329 CACGTAATAATTTTAATTTTATTTTTATTTTT
1 CACGTAATAATTTTAATTTTATTTTTATTTTT
841361 CACGTAAT
1 CACGTAAT
841369 GATGCGATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.60
Consensus pattern (32 bp):
CACGTAATAATTTTAATTTTATTTTTATTTTT
Found at i:844590 original size:240 final size:240
Alignment explanation
Indices: 844167--844650 Score: 968
Period size: 240 Copynumber: 2.0 Consensus size: 240
844157 GCATAATATG
844167 AGAAGAAGTACAATGTATACTAGCCAACTACATAAAATAGCATAAAAGCGAGAACAAGGGCAATT
1 AGAAGAAGTACAATGTATACTAGCCAACTACATAAAATAGCATAAAAGCGAGAACAAGGGCAATT
844232 CAGATTAACGAAAAGTAAAACAAAAACCTCATGTAAACTACTCCGAATCAGACGAACAATTTCAC
66 CAGATTAACGAAAAGTAAAACAAAAACCTCATGTAAACTACTCCGAATCAGACGAACAATTTCAC
844297 AATATTCCTTCTGCCATTTTAAACACCCATACTAAAACAGAACGAAAAATTGATATCTTCATTCT
131 AATATTCCTTCTGCCATTTTAAACACCCATACTAAAACAGAACGAAAAATTGATATCTTCATTCT
844362 TAGATTCTTTCATATCATTATTATAGCTCCCTGAATGTAACATAC
196 TAGATTCTTTCATATCATTATTATAGCTCCCTGAATGTAACATAC
844407 AGAAGAAGTACAATGTATACTAGCCAACTACATAAAATAGCATAAAAGCGAGAACAAGGGCAATT
1 AGAAGAAGTACAATGTATACTAGCCAACTACATAAAATAGCATAAAAGCGAGAACAAGGGCAATT
844472 CAGATTAACGAAAAGTAAAACAAAAACCTCATGTAAACTACTCCGAATCAGACGAACAATTTCAC
66 CAGATTAACGAAAAGTAAAACAAAAACCTCATGTAAACTACTCCGAATCAGACGAACAATTTCAC
844537 AATATTCCTTCTGCCATTTTAAACACCCATACTAAAACAGAACGAAAAATTGATATCTTCATTCT
131 AATATTCCTTCTGCCATTTTAAACACCCATACTAAAACAGAACGAAAAATTGATATCTTCATTCT
844602 TAGATTCTTTCATATCATTATTATAGCTCCCTGAATGTAACATAC
196 TAGATTCTTTCATATCATTATTATAGCTCCCTGAATGTAACATAC
844647 AGAA
1 AGAA
844651 AATAATACAA
Statistics
Matches: 244, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 244 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (240 bp):
AGAAGAAGTACAATGTATACTAGCCAACTACATAAAATAGCATAAAAGCGAGAACAAGGGCAATT
CAGATTAACGAAAAGTAAAACAAAAACCTCATGTAAACTACTCCGAATCAGACGAACAATTTCAC
AATATTCCTTCTGCCATTTTAAACACCCATACTAAAACAGAACGAAAAATTGATATCTTCATTCT
TAGATTCTTTCATATCATTATTATAGCTCCCTGAATGTAACATAC
Found at i:846302 original size:3 final size:3
Alignment explanation
Indices: 846288--846321 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
846278 GAAAAATGAA
*
846288 AAG AACG AAG AAG AAG AAG AAG AAG AAA AAG AAG
1 AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG
846322 GGAAGTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:846485 original size:8 final size:7
Alignment explanation
Indices: 846468--846500 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
846458 GGCTTTTGGC
*
846468 TTTTCTT
1 TTTTCCT
846475 TTTTCCT
1 TTTTCCT
846482 TTTTCCT
1 TTTTCCT
846489 TTTTCCT
1 TTTTCCT
846496 TTTTC
1 TTTTC
846501 AATGATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCCT
Found at i:848870 original size:37 final size:37
Alignment explanation
Indices: 848813--848917 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
848803 TATGATCACT
*
848813 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
848848 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
848885 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
848918 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:848960 original size:52 final size:52
Alignment explanation
Indices: 848881--849097 Score: 284
Period size: 52 Copynumber: 4.2 Consensus size: 52
848871 TAAGTGTAGC
* * *
848881 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
848934 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
848986 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
849032 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
849084 CACTTTGTCACTTG
1 CACTTT-TCACTTG
849098 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 85 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:849003 original size:46 final size:46
Alignment explanation
Indices: 848931--849103 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
848921 AGCTATCACT
*
848931 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
848976 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
849022 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
849074 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
849104 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:849047 original size:98 final size:98
Alignment explanation
Indices: 848880--849103 Score: 367
Period size: 98 Copynumber: 2.3 Consensus size: 98
848870 ATAAGTGTAG
* * * *
848880 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
848945 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
848978 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
849043 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
849076 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
849104 AGTACTCAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:853936 original size:21 final size:21
Alignment explanation
Indices: 853895--853936 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
853885 AATCATAACA
*
853895 ACAACAAAAAATGTACAATTG
1 ACAACAAAAAATGTAAAATTG
*
853916 ACAA-AAAAAATTTAAAGATTG
1 ACAACAAAAAATGTAAA-ATTG
853937 TGGTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (21 bp):
ACAACAAAAAATGTAAAATTG
Found at i:860222 original size:2 final size:2
Alignment explanation
Indices: 860217--860243 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
860207 TTCACACACT
860217 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
860244 GGGGCGTGCT
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:864336 original size:14 final size:14
Alignment explanation
Indices: 864319--864351 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
864309 AATATATACA
864319 TATATGTATGTGTG
1 TATATGTATGTGTG
*
864333 TATATGTGTGTGTG
1 TATATGTATGTGTG
864347 TATAT
1 TATAT
864352 AAACACTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (14 bp):
TATATGTATGTGTG
Found at i:864881 original size:3 final size:3
Alignment explanation
Indices: 864875--864904 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
864865 TTCTTTTAAC
*
864875 CAT CAT CAT CAT CAT CAC CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
864905 ACTCAAGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:874927 original size:32 final size:33
Alignment explanation
Indices: 874891--874965 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
874881 AGTTCAAGAA
* * *
874891 ATTTTGGATTTTG-TTTATTTTAGGTTTGGGTC
1 ATTTTGGATTTTGAATTATTTCAGGTTTAGGTC
* *
874923 ATTTT-GAGTTTGAATTGTTTCAGGTTTAGGTC
1 ATTTTGGATTTTGAATTATTTCAGGTTTAGGTC
*
874955 ACTTTGGATTT
1 ATTTTGGATTT
874966 GGATTAGTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
31 6 0.18
32 24 0.71
33 4 0.12
ACGTcount: A:0.16, C:0.05, G:0.24, T:0.55
Consensus pattern (33 bp):
ATTTTGGATTTTGAATTATTTCAGGTTTAGGTC
Found at i:875911 original size:19 final size:19
Alignment explanation
Indices: 875872--875911 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
875862 TAAATTAATA
875872 TTGAAAAAAATAATCTGAAC
1 TTGAAAAAAATAATC-GAAC
875892 TTGAAAACAAATAATC-AAC
1 TTGAAAA-AAATAATCGAAC
875911 T
1 T
875912 AGTACTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 8 0.42
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (19 bp):
TTGAAAAAAATAATCGAAC
Found at i:879476 original size:132 final size:132
Alignment explanation
Indices: 879237--879480 Score: 407
Period size: 132 Copynumber: 1.8 Consensus size: 132
879227 ATTGCCTCGC
* * * *
879237 TTTAGAAAACACGAATGAAATTCTAAAGGGATATTCGATTATTTTGCGCAAACGAGAAGTTGCAA
1 TTTAGAAAACACGAACGAAATTCTAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTGCAA
879302 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTTGTTTTAAAAAG
66 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTTGTTTTAAAAAG
879367 TT
131 TT
* * *
879369 TTTAGAAAACATGAACGAAATTCTAAAGATACATTCGATTATTTTGGGCAAACGAGAAATTGCAA
1 TTTAGAAAACACGAACGAAATTCTAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTGCAA
* *
879434 CCCAGCACGATAGGGCACGATTCCCCGAATTGCTAAATATCGAACAT
66 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
879481 CATCTCCGTT
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 103 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (132 bp):
TTTAGAAAACACGAACGAAATTCTAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTGCAA
CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTTGTTTTAAAAAG
TT
Found at i:880351 original size:22 final size:22
Alignment explanation
Indices: 880323--880375 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
880313 CATGTACACA
880323 ATATATATAATA-TATGAAAAAT
1 ATATATATAATATTAT-AAAAAT
880345 ATATATATAATATTTATAAAAAT
1 ATATATATAATA-TTATAAAAAT
880368 ATATATAT
1 ATATATAT
880376 GGTATAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.41
23 14 0.48
24 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATATATATAATATTATAAAAAT
Found at i:880356 original size:11 final size:11
Alignment explanation
Indices: 880323--880374 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
880313 CATGTACACA
880323 ATATATATAAT
1 ATATATATAAT
*
880334 ATATGA-AAAAT
1 ATAT-ATATAAT
880345 ATATATATAAT
1 ATATATATAAT
* *
880356 ATTTATA-AAA
1 ATATATATAAT
880366 ATATATATA
1 ATATATATA
880375 TGGTATAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
10 9 0.27
11 23 0.70
12 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
ATATATATAAT
Found at i:887972 original size:29 final size:30
Alignment explanation
Indices: 887913--887970 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
887903 TCCGAGCCTT
*
887913 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
887943 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
887971 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:888201 original size:13 final size:13
Alignment explanation
Indices: 888183--888213 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
888173 TTCCAGCAAC
888183 TATGAATTTATTT
1 TATGAATTTATTT
888196 TATGAATTTATTT
1 TATGAATTTATTT
*
888209 GATGA
1 TATGA
888214 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:888383 original size:50 final size:50
Alignment explanation
Indices: 888308--888493 Score: 282
Period size: 50 Copynumber: 3.7 Consensus size: 50
888298 ATTTGGGTAA
888308 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
* *
888358 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
* * * * *
888408 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
**
888458 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
888494 TTTGGCATGT
Statistics
Matches: 123, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 94 0.76
51 29 0.24
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.19
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
Found at i:898405 original size:30 final size:30
Alignment explanation
Indices: 898370--898472 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
898360 TAACTAGGTC
*
898370 CCTTCAAAATTTTAAAAAATTCTAAATAAA
1 CCTTCAAAATTTTAAAAAATTCTAATTAAA
* *
898400 CCTTCAAATAGTTTAAAAAATTTTAATTAAA
1 CCTTCAAA-ATTTTAAAAAATTCTAATTAAA
* * ** * *
898431 CCCTCAAATTTTTTGAAAATTCTCATTAAT
1 CCTTCAAAATTTTAAAAAATTCTAATTAAA
898461 CCTCTCAAAATT
1 CCT-TCAAAATT
898473 GTAACATTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
30 25 0.43
31 33 0.57
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.38
Consensus pattern (30 bp):
CCTTCAAAATTTTAAAAAATTCTAATTAAA
Found at i:899362 original size:22 final size:20
Alignment explanation
Indices: 899335--899374 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
899325 GGTTCAATGT
899335 ATATATATATACACAGCATA
1 ATATATATATACACAGCATA
899355 ATATATATATACACAGCATA
1 ATATATATATACACAGCATA
899375 TTGAGTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (20 bp):
ATATATATATACACAGCATA
Found at i:904635 original size:131 final size:131
Alignment explanation
Indices: 904401--904657 Score: 397
Period size: 131 Copynumber: 2.0 Consensus size: 131
904391 TGATTATTCA
* * *
904401 TTTAAAAATTCTTTAAAATGAAGGCAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGCTTGGCAATTCGGGAAATCGTGCCCTATC
* * * * * *
904466 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAGTAATCGAATATTCCTTTGGAATTTCACTCGTGT
66 GTGATGGGTTACAATTTCCCATTTGTTCAAAATAATCGAACATCCCTTTGGAATTTCACTCGTGT
904531 C
131 C
*
904532 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGCTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGCTTGGCAATTCGGGAAATCGTGCCCTATC
* * *
904597 GTGATGGGTTACAGTTTTCCATTTGTTCAAAATAATCGAACATCCCTTTTGAATTTCACTC
66 GTGATGGGTTACAATTTCCCATTTGTTCAAAATAATCGAACATCCCTTTGGAATTTCACTC
904658 ATATTTTCTA
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 113 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGCTTGGCAATTCGGGAAATCGTGCCCTATC
GTGATGGGTTACAATTTCCCATTTGTTCAAAATAATCGAACATCCCTTTGGAATTTCACTCGTGT
C
Found at i:905646 original size:13 final size:13
Alignment explanation
Indices: 905628--905655 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
905618 ACTTGAGTAA
905628 ATGATATCCTCTC
1 ATGATATCCTCTC
905641 ATGATATCCTCTC
1 ATGATATCCTCTC
905654 AT
1 AT
905656 TGGCATTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (13 bp):
ATGATATCCTCTC
Found at i:908300 original size:51 final size:50
Alignment explanation
Indices: 908141--908297 Score: 242
Period size: 51 Copynumber: 3.1 Consensus size: 50
908131 ACTTCTGATC
* *
908141 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* **
908192 AGTGACAAATGATAAGTGGTAGCTTAGCTACTTTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
908242 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
908293 AGTGA
1 AGTGA
908298 TAAATGTGAT
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 45 0.47
51 51 0.53
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:913934 original size:59 final size:60
Alignment explanation
Indices: 913851--914019 Score: 242
Period size: 60 Copynumber: 2.9 Consensus size: 60
913841 ATCTCTTCTT
913851 CATTAACATTACA-TTCATTACATACAATAAATTTCTAAAATCCAAAATACGC-TTCATG
1 CATTAACATTACATTTCATTACATACAATAAATTTCTAAAATCCAAAATACGCGTTCATG
*
913909 CATTAACATTACATTTTATTACATACAAT-AATTTCCTAAAATCCAAAAATACGCGTTCATG
1 CATTAACATTACATTTCATTACATACAATAAATTT-CTAAAATCC-AAAATACGCGTTCATG
* *
913970 CATCAA-ATTACATTTCATTGCATACAATAAA-TTCTAAAAT-CAAAAGTACG
1 CATTAACATTACATTTCATTACATACAATAAATTTCTAAAATCCAAAA-TACG
914020 TCGAGTTTAG
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
57 4 0.04
58 23 0.23
59 30 0.30
60 31 0.31
61 13 0.13
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.33
Consensus pattern (60 bp):
CATTAACATTACATTTCATTACATACAATAAATTTCTAAAATCCAAAATACGCGTTCATG
Found at i:915274 original size:13 final size:13
Alignment explanation
Indices: 915256--915288 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
915246 TGGAGGGCAA
915256 AAAAAAAAGAGAC
1 AAAAAAAAGAGAC
915269 -AAAAAAA-AGAC
1 AAAAAAAAGAGAC
915280 AAAAAAAAG
1 AAAAAAAAG
915289 TAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAC
Found at i:915293 original size:10 final size:11
Alignment explanation
Indices: 915257--915298 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
915247 GGAGGGCAAA
915257 AAAAAAAGAGAC
1 AAAAAAA-AGAC
915269 AAAAAAAAGAC
1 AAAAAAAAGAC
915280 AAAAAAAAGTA-
1 AAAAAAAAG-AC
915291 AAAAAAAA
1 AAAAAAAA
915299 AAAACGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAC
Found at i:915316 original size:42 final size:38
Alignment explanation
Indices: 915254--915334 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 38
915244 AGTGGAGGGC
*
915254 AAAAAAAAAAGAGACAAAAAAAAGA-CAAAAAAAAGTAAA
1 AAAAAAAAAAGAGA-AAAAAAAAAACCAAAAAAAAG-AAA
*
915293 AAAAAAAAAACGAGAAAATAAAAAAAACCAAATAAAAGAAA
1 AAAAAAAAAA-GAG-AAA-AAAAAAAACCAAAAAAAAGAAA
915334 A
1 A
915335 CCTCTACTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
39 10 0.28
40 5 0.14
41 12 0.33
42 9 0.25
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.04
Consensus pattern (38 bp):
AAAAAAAAAAGAGAAAAAAAAAAACCAAAAAAAAGAAA
Found at i:915325 original size:14 final size:15
Alignment explanation
Indices: 915308--915336 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
915298 AAAAACGAGA
915308 AAATAAAA-AAAACC
1 AAATAAAAGAAAACC
915322 AAATAAAAGAAAACC
1 AAATAAAAGAAAACC
915337 TCTACTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.14, G:0.03, T:0.07
Consensus pattern (15 bp):
AAATAAAAGAAAACC
Found at i:915770 original size:8 final size:9
Alignment explanation
Indices: 915745--915789 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
915735 ACTTCACTTT
915745 AAAAAAATG
1 AAAAAAATG
915754 AAAAGAAAATG
1 -AAA-AAAATG
915765 AAAAAAATG
1 AAAAAAATG
*
915774 AAAAAGAAAG
1 AAAAA-AATG
915784 AAAAAA
1 AAAAAA
915790 GAAAAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 12 0.38
10 14 0.44
11 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (9 bp):
AAAAAAATG
Found at i:915771 original size:21 final size:19
Alignment explanation
Indices: 915745--915799 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
915735 ACTTCACTTT
915745 AAAAAAATG-AAAAGAAAATG
1 AAAAAAATGAAAAAG-AAA-G
915765 AAAAAAATGAAAAAGAAAG
1 AAAAAAATGAAAAAGAAAG
915784 -AAAAAA-GAAAAAGAAA
1 AAAAAAATGAAAAAGAAA
915800 AAAGGAGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.29
18 6 0.18
19 1 0.03
20 12 0.35
21 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAAAAATGAAAAAGAAAG
Found at i:915787 original size:17 final size:17
Alignment explanation
Indices: 915754--915799 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
915744 TAAAAAAATG
*
915754 AAAAGAAAATG-AA-AA
1 AAAAGAAAAAGAAAGAA
*
915769 AAATGAAAAAGAAAGAA
1 AAAAGAAAAAGAAAGAA
915786 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
915800 AAAGGAGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 9 0.35
16 2 0.08
17 15 0.58
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (17 bp):
AAAAGAAAAAGAAAGAA
Found at i:916871 original size:30 final size:32
Alignment explanation
Indices: 916812--916871 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
916802 TAACAGGTCC
* *
916812 GTCTTCCTATATTGGTAGGCGATGCAGATCTT
1 GTCTTCCCATATTGGTAGGCGAAGCAGATCTT
*
916844 GTCTTCCCATA-TGGT-GGCGAAGTAGATC
1 GTCTTCCCATATTGGTAGGCGAAGCAGATC
916872 GAAGAAAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.44
31 4 0.16
32 10 0.40
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (32 bp):
GTCTTCCCATATTGGTAGGCGAAGCAGATCTT
Found at i:917306 original size:134 final size:134
Alignment explanation
Indices: 916895--917355 Score: 792
Period size: 134 Copynumber: 3.5 Consensus size: 134
916885 CTTATCTTCA
916895 TGTA-TTGGC-GT-GAAGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
1 TGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
* * *
916957 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAACCGATAA-TCT
65 AGATCAAAGATGGCAGATTTTACCTCC--CTGACCACAGTGGAGTACATTGAAGCCGATAACTCT
917021 ATCTCCC
128 ATCTCCC
*
917028 TGTATTTGGCAGTAGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC-AAGCA
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
*
917092 GATCAAAGATGACAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATC
66 GATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATC
917157 TCCC
131 TCCC
917161 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
917226 GATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGGAGTACATTGAAGCCGATAACTCTAT
66 GATCAAAGATGGCAGATTTTACCTCCCTGACCACAGT-GGAGTACATTGAAGCCGATAACTCTAT
917291 CTCCC
130 CTCCC
917296 T-TATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTA-TTGGCAGCGAA
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAA
917356 TCCAAAAAGA
Statistics
Matches: 316, Mismatches: 6, Indels: 12
0.95 0.02 0.04
Matches are distributed among these distances:
132 29 0.09
133 83 0.26
134 124 0.39
135 77 0.24
136 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (134 bp):
TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
GATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATC
TCCC
Found at i:921759 original size:15 final size:15
Alignment explanation
Indices: 921739--921769 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
921729 TACCGATGTA
921739 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
921754 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
921769 A
1 A
921770 AATATGATAG
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:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:924924 original size:20 final size:20
Alignment explanation
Indices: 924885--924926 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
924875 ATGTTAGAGT
*
924885 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
924905 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
924925 TA
1 TA
924927 CCGATGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:924955 original size:15 final size:15
Alignment explanation
Indices: 924935--924965 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
924925 TACCGATGTA
924935 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
924950 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
924965 A
1 A
924966 AAGATGATAG
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:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:928572 original size:19 final size:19
Alignment explanation
Indices: 928548--928585 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
928538 GGGAAAAAAC
928548 TGATTCAATGTGTTCCTTT
1 TGATTCAATGTGTTCCTTT
928567 TGATTCAATGTGTTCCTTT
1 TGATTCAATGTGTTCCTTT
928586 ATCAAAGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (19 bp):
TGATTCAATGTGTTCCTTT
Found at i:944126 original size:22 final size:22
Alignment explanation
Indices: 944101--944142 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
944091 GATTCTACGA
944101 ATTTTTTTAAATTAAAAAATAG
1 ATTTTTTTAAATTAAAAAATAG
*
944123 ATTTTTTTAAATTAGAAAAT
1 ATTTTTTTAAATTAAAAAAT
944143 GATAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTTTTTTAAATTAAAAAATAG
Found at i:948435 original size:15 final size:15
Alignment explanation
Indices: 948415--948445 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
948405 TCCCTGTTAC
948415 ACACCCAAAGTTTAA
1 ACACCCAAAGTTTAA
948430 ACACCCAAAGTTTAA
1 ACACCCAAAGTTTAA
948445 A
1 A
948446 ATCAATATGA
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:0.48, C:0.26, G:0.06, T:0.19
Consensus pattern (15 bp):
ACACCCAAAGTTTAA
Found at i:953176 original size:57 final size:55
Alignment explanation
Indices: 953115--953613 Score: 227
Period size: 63 Copynumber: 9.1 Consensus size: 55
953105 AGCTTAGTGG
*
953115 TAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGTTGATGATTGGAGGTCTAAGC-
1 TAGTGAAGGTG--GAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGCT
* * * *
953171 T--T--A-GT-G---GTGGTCAAGAGGCATATGCTGATGATTGAAGCTCTAAGCTTAGT
1 TAGTGAAGGTGGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGC----T
* *
953221 GGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGCTGATGATTGGAAGTCCAAGC-
1 --TAGTGAAGGTG--GAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGCT
* * * *
953279 ---T--A-GT-G---GTGGTCAAGAGGCTTATGCTGATGATTGGAGCTCTAAGCTTAGT
1 TAGTGAAGGTGGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGC----T
953328 GGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGC-
1 --TAGTGAAGGTG--GAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGCT
* * * *
953386 T--T--A-GT-G---GTGGTCAAGAGGCATATGCTGACGATTGGAGCTCTAAGCTTAGT
1 TAGTGAAGGTGGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGC----T
* *
953436 GGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGTTGATGATTGGAGCTCTAAGCT
1 --TAGTGAAGGTG--GAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGCT
** ** *
953495 TAGTCGCAACCATGGAAA-TGGTGAAGATGCATATTTTGATAATTGGAGGTCTAAGCT
1 TAGT-G-AA-GGTGGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGCT
* ** ** *
953552 TAGAGGCAACCATGGAAA-TGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAACT
1 TAG-TG-AA-GGTGGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGCT
953609 TAGTG
1 TAGTG
953614 GCAGCCAGGG
Statistics
Matches: 346, Mismatches: 38, Indels: 118
0.69 0.08 0.24
Matches are distributed among these distances:
44 33 0.10
45 69 0.20
47 1 0.00
48 2 0.01
50 2 0.01
51 5 0.01
52 4 0.01
53 1 0.00
54 5 0.01
56 6 0.02
57 102 0.29
58 5 0.01
59 3 0.01
60 5 0.01
63 103 0.30
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.28
Consensus pattern (55 bp):
TAGTGAAGGTGGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGCT
Found at i:953192 original size:45 final size:45
Alignment explanation
Indices: 953132--953223 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
953122 GGTGAAGAAA
* * * * *
953132 GTGGTGAAGATGCATATGTTGATGATTGGAGGTCTAAGCTTAGTG
1 GTGGTCAAGAGGCATATGCTGATGATTGAAGCTCTAAGCTTAGTG
953177 GTGGTCAAGAGGCATATGCTGATGATTGAAGCTCTAAGCTTAGTG
1 GTGGTCAAGAGGCATATGCTGATGATTGAAGCTCTAAGCTTAGTG
953222 GT
1 GT
953224 AGTGAAGGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.10, G:0.34, T:0.32
Consensus pattern (45 bp):
GTGGTCAAGAGGCATATGCTGATGATTGAAGCTCTAAGCTTAGTG
Found at i:953253 original size:108 final size:108
Alignment explanation
Indices: 953101--953498 Score: 717
Period size: 108 Copynumber: 3.7 Consensus size: 108
953091 TTTATGGGGG
*
953101 TCTAAGCTTAGTGGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGTTGATGATTGGAGGTC
1 TCTAAGCTTAGTGGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTC
*
953166 TAAGCTTAGTGGTGGTCAAGAGGCATATGCTGATGATTGAAGC
66 TAAGCTTAGTGGTGGTCAAGAGGCATATGCTGATGATTGGAGC
*
953209 TCTAAGCTTAGTGGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGCTGATGATTGGAAGTC
1 TCTAAGCTTAGTGGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTC
* *
953274 CAAGC-TAGTGGTGGTCAAGAGGCTTATGCTGATGATTGGAGC
66 TAAGCTTAGTGGTGGTCAAGAGGCATATGCTGATGATTGGAGC
953316 TCTAAGCTTAGTGGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTC
1 TCTAAGCTTAGTGGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTC
*
953381 TAAGCTTAGTGGTGGTCAAGAGGCATATGCTGACGATTGGAGC
66 TAAGCTTAGTGGTGGTCAAGAGGCATATGCTGATGATTGGAGC
* *
953424 TCTAAGCTTAGTGGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGTTGATGATTGGAGCTC
1 TCTAAGCTTAGTGGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTC
953489 TAAGCTTAGT
66 TAAGCTTAGT
953499 CGCAACCATG
Statistics
Matches: 278, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
107 103 0.37
108 175 0.63
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.28
Consensus pattern (108 bp):
TCTAAGCTTAGTGGTAGTGAAGGTGAAGAAAGTGGTGAAGATGCATATGCTGATGATTGGAGGTC
TAAGCTTAGTGGTGGTCAAGAGGCATATGCTGATGATTGGAGC
Found at i:953302 original size:44 final size:45
Alignment explanation
Indices: 953240--953330 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 45
953230 GGTGAAGAAA
* *
953240 GTGGTGAAGATGCATATGCTGATGATTGGAAG-TCCAAGC-TAGTG
1 GTGGTCAAGAGGCATATGCTGATGATTGG-AGCTCCAAGCTTAGTG
* *
953284 GTGGTCAAGAGGCTTATGCTGATGATTGGAGCTCTAAGCTTAGTG
1 GTGGTCAAGAGGCATATGCTGATGATTGGAGCTCCAAGCTTAGTG
953329 GT
1 GT
953331 AGTGAAGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 2 0.05
44 32 0.78
45 7 0.17
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (45 bp):
GTGGTCAAGAGGCATATGCTGATGATTGGAGCTCCAAGCTTAGTG
Found at i:953407 original size:45 final size:45
Alignment explanation
Indices: 953347--953438 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
953337 GGTGAAGAAA
* * * *
953347 GTGGTGAAGATGCATATGCTGATGATTGGAGGTCTAAGCTTAGTG
1 GTGGTCAAGAGGCATATGCTGACGATTGGAGCTCTAAGCTTAGTG
953392 GTGGTCAAGAGGCATATGCTGACGATTGGAGCTCTAAGCTTAGTG
1 GTGGTCAAGAGGCATATGCTGACGATTGGAGCTCTAAGCTTAGTG
953437 GT
1 GT
953439 AGTGAAGGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (45 bp):
GTGGTCAAGAGGCATATGCTGACGATTGGAGCTCTAAGCTTAGTG
Found at i:953626 original size:57 final size:57
Alignment explanation
Indices: 953451--953664 Score: 304
Period size: 57 Copynumber: 3.7 Consensus size: 57
953441 TGAAGGTGAA
* * *
953451 GAAAGTGGTGAAGATGCATATGTTGATGATTGGAGCTCTAAGCTTAGTCGCAACCATG
1 GAAA-TGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTGGCAACCATG
* *
953509 GAAATGGTGAAGATGCATATTTTGATAATTGGAGGTCTAAGCTTAGAGGCAACCATG
1 GAAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTGGCAACCATG
* * *
953566 GAAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAACTTAGTGGCAGCCAGG
1 GAAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTGGCAACCATG
* * *
953623 GAAATAGTGAAGATGAATATTTTGAT-ACTTGGAGATCTAAGC
1 GAAATGGTGAAGATGCATATTTTGATGA-TTGGAGGTCTAAGC
953665 CCAGTTCCAA
Statistics
Matches: 141, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
56 1 0.01
57 136 0.96
58 4 0.03
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.29
Consensus pattern (57 bp):
GAAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTGGCAACCATG
Found at i:959931 original size:5 final size:5
Alignment explanation
Indices: 959921--959949 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
959911 AAACAACATA
959921 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
959950 AACTATTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:962143 original size:57 final size:57
Alignment explanation
Indices: 962051--962224 Score: 303
Period size: 57 Copynumber: 3.1 Consensus size: 57
962041 AAGGTGAAGA
* * *
962051 AAATGGTGAAGATGCATATGTTAATGATTGGAGGTCTACGCTTAGTAGCAACCATGG
1 AAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTAGCAACCATGG
* *
962108 AAATGGTGAAGATGCATATTTTGATGATTGAAGGTCTAAGCTTAGTGGCAACCATGG
1 AAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTAGCAACCATGG
962165 AAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTAGCAACCATGG
1 AAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTAGCAACCATGG
962222 AAA
1 AAA
962225 GGAGGAATTT
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 110 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.29
Consensus pattern (57 bp):
AAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTAGCAACCATGG
Found at i:962386 original size:105 final size:105
Alignment explanation
Indices: 962149--962386 Score: 273
Period size: 105 Copynumber: 2.3 Consensus size: 105
962139 AGGTCTAAGC
* * * * ** *
962149 TTAGTGGCAACCATGGAAATGGTGAAGATGCATATTTTGATGATTGGAGGTCTAAGCTTAGTAGC
1 TTAGTGGCAGCCATGGAAATGGTGAAGATGAATATTTTGATGATTGGAGATCTAACCCCAGTACC
* * * * *
962214 AACCATGGAAAGGAGGAATTTGATGATTGGAGCCATGATT
66 AACAATGGAAACGAAGAATTTGACGATGGGAGCCATGATT
* * *
962254 TTAGTGGCAGCCAGGGAAATAGTGAAGATGAATATTTTGAT-ACTTGGAGATCTAACCCCAGTTC
1 TTAGTGGCAGCCATGGAAATGGTGAAGATGAATATTTTGATGA-TTGGAGATCTAACCCCAGTAC
962318 CAACAATGGAAACGAAGAATTTGACGATCGGGA-CCATGATT
65 CAACAATGGAAACGAAGAATTTGACGAT-GGGAGCCATGATT
* * * *
962359 TTAGTGTCCGTCATGGAAATGGAGAAGA
1 TTAGTGGCAGCCATGGAAATGGTGAAGA
962387 AGCACTCAAA
Statistics
Matches: 110, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
104 1 0.01
105 106 0.96
106 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (105 bp):
TTAGTGGCAGCCATGGAAATGGTGAAGATGAATATTTTGATGATTGGAGATCTAACCCCAGTACC
AACAATGGAAACGAAGAATTTGACGATGGGAGCCATGATT
Found at i:965292 original size:15 final size:15
Alignment explanation
Indices: 965272--965302 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
965262 ATTATTTATT
965272 CTCAAAAGTCAACTA
1 CTCAAAAGTCAACTA
965287 CTCAAAAGTCAACTA
1 CTCAAAAGTCAACTA
965302 C
1 C
965303 AAAATTGACA
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:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (15 bp):
CTCAAAAGTCAACTA
Found at i:966455 original size:26 final size:25
Alignment explanation
Indices: 966418--966466 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
966408 AACTTGTCAA
*
966418 TTTTTTCTAA-TTAAATATCTAAATT
1 TTTTTTCCAATTTAAA-ATCTAAATT
966443 TTTTTATCCAATTTAAAATCTAAA
1 TTTTT-TCCAATTTAAAATCTAAA
966467 CATATCGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 11 0.52
27 5 0.24
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTTTCCAATTTAAAATCTAAATT
Found at i:969334 original size:227 final size:227
Alignment explanation
Indices: 968929--970117 Score: 1575
Period size: 227 Copynumber: 5.2 Consensus size: 227
968919 CCAATGCTAG
* * * * *
968929 CTACCATGCAGGAAGTTATAGAAATGAACAATCAATCCAAGGTAAATCATTTTATTTCCATTATA
1 CTACCAGGCTGGAAGTTATGGAAATGAACAATCAATCCAAGGTAAATCATTTGATTTTCATTATA
* * * * * * *
968994 TGTACATATGTTAATGTTTAGGTTTTCGAGAACAGAATTCGACTATTTAAGCCAAATTAACTAAG
66 TGTATATATGTTAATATTTAGGTTTTCGAGAATAAAACTCAACTGTTTAAGCCAAATTAACTAAG
* * * *
969059 CTTTAACATTTAAAATTTGAGTTTAAATGTTTTTAGATTATTCAGGTAATAGTACTGGACCATCT
131 CTTTAACATTTAAAATTTGGGTTTAAATGTTTTCAGACTATTCAGGTAATAATACTGGACCATCT
969124 AAGGAATTTAGTGCTCCAAGCTCTCTAGGAGC
196 AAGGAATTTAGTGCTCCAAGCTCTCTAGGAGC
* * *
969156 CTACCAGGCTGGAAGTTATAGAAATGAACAATTAATCCAAGGTAAATCATTTGATTTTCATTAAA
1 CTACCAGGCTGGAAGTTATGGAAATGAACAATCAATCCAAGGTAAATCATTTGATTTTCATTATA
* *
969221 TGTATGTATGTTAATATTTAGGTTTTCGAGAATAAAACTCAATTGTTTAAGCCAAATTAACTAAG
66 TGTATATATGTTAATATTTAGGTTTTCGAGAATAAAACTCAACTGTTTAAGCCAAATTAACTAAG
* ** * *
969286 CTTTAACATTTAAAATTTAGGTTTAAATGTTTTCAGACTATTCAGGTAATGGTACTGGATCATAT
131 CTTTAACATTTAAAATTTGGGTTTAAATGTTTTCAGACTATTCAGGTAATAATACTGGACCATCT
* *
969351 GAGGAATTTAGTGCTCCAAGCTTTCTAGGAGC
196 AAGGAATTTAGTGCTCCAAGCTCTCTAGGAGC
* *
969383 CTACCAGGCTGGAAGTTATGGAAATAAACAATCAATCCAAGGTAAATCATTTGA-TATCTATTAT
1 CTACCAGGCTGGAAGTTATGGAAATGAACAATCAATCCAAGGTAAATCATTTGATTTTC-ATTAT
* * *
969447 ATATATATAT-TTAATGTTTACGTTTTCGAGAATAAAACTCAACTGTTTAAGCCAAATTAACTAA
65 ATGTATATATGTTAATATTTAGGTTTTCGAGAATAAAACTCAACTGTTTAAGCCAAATTAACTAA
* * * * *
969511 GCTTTAACATTCAAAATTTGGGTTTAAA----TTCAGATTATTCAAGCAATAATACTGGACTATC
130 GCTTTAACATTTAAAATTTGGGTTTAAATGTTTTCAGACTATTCAGGTAATAATACTGGACCATC
* *
969572 TAAGGAATTTAGTGCTCCAAGCTCTCTGGGAGT
195 TAAGGAATTTAGTGCTCCAAGCTCTCTAGGAGC
* * *
969605 CGACCAGGCTGGAGGTTATGAAAATGAACAATCAATCCAAGGTAAATCATTTGA-TTTCTATTAT
1 CTACCAGGCTGGAAGTTATGGAAATGAACAATCAATCCAAGGTAAATCATTTGATTTTC-ATTAT
* *
969669 ATGTATATATGTTAATGTTTAGGTTTAGGTTTTCGAGAATAAAACTCAACTGTTCAAGCTAAATT
65 ATGTATATATGTTAA----TA--TTTAGGTTTTCGAGAATAAAACTCAACTGTTTAAGCCAAATT
* * * * * *
969734 AACAAAGTTTTAGCATTTAAAATTTGGGTCTAAATGTCTTCAGACTATTCAGGCAATAATACTGG
124 AACTAAGCTTTAACATTTAAAATTTGGGTTTAAATGTTTTCAGACTATTCAGGTAATAATACTGG
* * *
969799 ACTATTTAAGGAATTTAGTGCTCCAAGCTCTCTAGGTGC
189 ACCATCTAAGGAATTTAGTGCTCCAAGCTCTCTAGGAGC
* *
969838 CTACCAGACTGGAAGTTATGGAAATGAACAATCAATCCAAGGTAAATCATTTGATTTTCATTACA
1 CTACCAGGCTGGAAGTTATGGAAATGAACAATCAATCCAAGGTAAATCATTTGATTTTCATTATA
* * * * *
969903 TGTATATATATGTTAATATTTACGTTTTTGAAAATAAAACTCAACTATTTAAGCTAAATTAACTA
66 TG--TATATATGTTAATATTTAGGTTTTCGAGAATAAAACTCAACTGTTTAAGCCAAATTAACTA
* * **
969968 AGCTTTAACATTTAAAATTTGGGTCTAAATATTTTCAGACTATTCAGGTAATAATACTACACCAT
129 AGCTTTAACATTTAAAATTTGGGTTTAAATGTTTTCAGACTATTCAGGTAATAATACTGGACCAT
**
970033 CTAAAAAATTTAGTGCTCCAAGCTCTCTAGGTA-C
194 CTAAGGAATTTAGTGCTCCAAGCTCTCTAGG-AGC
* * * * *
970067 CTACCATGCCGGAAGTTATGGAAATAAACAATCAATTCAAGGTAAAGCATT
1 CTACCAGGCTGGAAGTTATGGAAATGAACAATCAATCCAAGGTAAATCATT
970118 ATGCCTACAT
Statistics
Matches: 848, Mismatches: 98, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
222 122 0.14
223 4 0.00
226 80 0.09
227 267 0.31
229 240 0.28
231 2 0.00
233 117 0.14
234 4 0.00
235 12 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (227 bp):
CTACCAGGCTGGAAGTTATGGAAATGAACAATCAATCCAAGGTAAATCATTTGATTTTCATTATA
TGTATATATGTTAATATTTAGGTTTTCGAGAATAAAACTCAACTGTTTAAGCCAAATTAACTAAG
CTTTAACATTTAAAATTTGGGTTTAAATGTTTTCAGACTATTCAGGTAATAATACTGGACCATCT
AAGGAATTTAGTGCTCCAAGCTCTCTAGGAGC
Found at i:971445 original size:22 final size:22
Alignment explanation
Indices: 971417--971474 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
971407 CAATTGTTTT
*
971417 GTTGTTATTTTGTTATCATTTC
1 GTTGTTATTTTGTTACCATTTC
* *
971439 GTTGTTATATTGTTACCATTTT
1 GTTGTTATTTTGTTACCATTTC
*
971461 ATTGTTATTGTTGT
1 GTTGTTATT-TTGT
971475 GTTATTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.16, C:0.07, G:0.16, T:0.62
Consensus pattern (22 bp):
GTTGTTATTTTGTTACCATTTC
Found at i:971523 original size:9 final size:9
Alignment explanation
Indices: 971509--971538 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
971499 TAAGAAATAT
971509 TATTTTTAA
1 TATTTTTAA
971518 TATTTTTAA
1 TATTTTTAA
*
971527 TATATTTAA
1 TATTTTTAA
971536 TAT
1 TAT
971539 ATTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTTAA
Found at i:978979 original size:14 final size:14
Alignment explanation
Indices: 978960--978991 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
978950 ACCAAAACAG
978960 CTTTTTTCTCCAAT
1 CTTTTTTCTCCAAT
978974 CTTTTTTCTCCAAT
1 CTTTTTTCTCCAAT
978988 CTTT
1 CTTT
978992 GATATATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.59
Consensus pattern (14 bp):
CTTTTTTCTCCAAT
Found at i:983184 original size:3 final size:3
Alignment explanation
Indices: 983176--983214 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
983166 TGAGTTATTA
983176 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
983215 TGGTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:984343 original size:140 final size:141
Alignment explanation
Indices: 984090--984438 Score: 554
Period size: 141 Copynumber: 2.5 Consensus size: 141
984080 ACCTTAGTAC
*
984090 ATCTAAGTATGATGATGTTCTGTCATTTTTTCGTCATTTCTAAGAAGCCTACAAGAAGCAATATT
1 ATCTAAGTACGAT-ATGTTCTGTCATTTTTT-GTCATTTCTAAGAAGCCTACAAGAAGCAATATT
984155 ----G--GAAGAAGAAGGTTAAACCTACTTCAAAATGAATTCCTTCC-TTTTTTTTCCACAAGAC
64 GGAAGAAGAAGAAGAAGGTTAAACCTACTTCAAAATGAATTCCTTCCTTTTTTTTTCCACAAGAC
984213 TACGGGGGAGAAT
129 TACGGGGGAGAAT
* *
984226 GTCTAAGTACGATATGTTCTGTCATTTTTTGTCATTTCTAAGAAGCCTACAAGACGCAATATTGG
1 ATCTAAGTACGATATGTTCTGTCATTTTTTGTCATTTCTAAGAAGCCTACAAGAAGCAATATTGG
984291 AAGAAGAAGAAGAAGGTTAAACCTACTTCAAAATGAATTCCTTCCTTTTTTTTTTTCCACAAGAC
66 AAGAAGAAGAAGAAGGTTAAACCTACTTCAAAATGAATTCCTTCC--TTTTTTTTTCCACAAGAC
984356 TACGGGGGAGAAT
129 TACGGGGGAGAAT
* *
984369 ATCTAAGTACG--ATGTTCTGTCATTTTTTGTCATTTCTAAGAAGCCTACAAGAGGTAATATTGG
1 ATCTAAGTACGATATGTTCTGTCATTTTTTGTCATTTCTAAGAAGCCTACAAGAAGCAATATTGG
984432 AAGAAGA
66 AAGAAGA
984439 CGGAGGAGGA
Statistics
Matches: 198, Mismatches: 6, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
134 32 0.16
135 17 0.09
136 11 0.06
138 1 0.01
140 40 0.20
141 57 0.29
143 40 0.20
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (141 bp):
ATCTAAGTACGATATGTTCTGTCATTTTTTGTCATTTCTAAGAAGCCTACAAGAAGCAATATTGG
AAGAAGAAGAAGAAGGTTAAACCTACTTCAAAATGAATTCCTTCCTTTTTTTTTCCACAAGACTA
CGGGGGAGAAT
Found at i:984446 original size:3 final size:3
Alignment explanation
Indices: 984440--984464 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
984430 GGAAGAAGAC
984440 GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA G
984465 AGTTAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:995026 original size:93 final size:93
Alignment explanation
Indices: 994841--995039 Score: 213
Period size: 93 Copynumber: 2.1 Consensus size: 93
994831 TTCTGACCAG
* * * *
994841 CGAATCGTTGGTTTTAGTAACAGGATTGGGTGCTAAAGCAGGGGACATTGCCGGAGCTAGTGAAG
1 CGAATCATTGGTTTTAGTAACAGGATTGGGTGCTAAAGCAGGGGACATAGCCGGAGCCAGCGAAG
*** ** * *
994906 ATTTGCTTTCTTTACCGGATTTAACAAC
66 AACCGCAATCCTCACCGGATTTAACAAC
* *
994934 CGAATCATTGGTTTTAGTAACCGGATTGGGTGCTACAA-CAGGGGACATAGCTGGAGCCAGCGAA
1 CGAATCATTGGTTTTAGTAACAGGATTGGGTGCTA-AAGCAGGGGACATAGCCGGAGCCAGCGAA
* * *
994998 GAAACCG-AATCCTCACTGGTTTTTACAAC
65 G-AACCGCAATCCTCACCGGATTTAACAAC
*
995027 AGAATCATTGGTT
1 CGAATCATTGGTT
995040 GCTAAAACAG
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
93 83 0.95
94 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (93 bp):
CGAATCATTGGTTTTAGTAACAGGATTGGGTGCTAAAGCAGGGGACATAGCCGGAGCCAGCGAAG
AACCGCAATCCTCACCGGATTTAACAAC
Found at i:995049 original size:75 final size:75
Alignment explanation
Indices: 994958--995189 Score: 322
Period size: 75 Copynumber: 3.1 Consensus size: 75
994948 TAGTAACCGG
* * * * * *
994958 ATTGGGTGCTACAACAGGGGACATAGCTGGAGCCAGCGAAGAAACCGAATCCTCACTGGTTTTTA
1 ATTGGTTGCTAAAACAGGGGACATTGCCGGAGCCGGCGAAGAAACCGAATCCTCACCGGTTTTTA
*
995023 CAACAGAATC
66 CAACGGAATC
*
995033 ATTGGTTGCTAAAACAGGGGACATTGCCGGAACCGGCGAAGAAACCGAATCCTCACCGGTTTTTA
1 ATTGGTTGCTAAAACAGGGGACATTGCCGGAGCCGGCGAAGAAACCGAATCCTCACCGGTTTTTA
995098 CAACGGAATC
66 CAACGGAATC
** * *
995108 ATTGGTTGCTAATGCAGGGGGA-ATTGCCGGAGCCGGCGAAGAAACCAAATCCTCACCGGTTTTA
1 ATTGGTTGCTAAAACA-GGGGACATTGCCGGAGCCGGCGAAGAAACCGAATCCTCACCGGTTTTT
*
995172 ACAATGGAATC
65 ACAACGGAATC
*
995183 ATCGGTT
1 ATTGGTT
995190 TCAGTAATGG
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
75 136 0.96
76 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (75 bp):
ATTGGTTGCTAAAACAGGGGACATTGCCGGAGCCGGCGAAGAAACCGAATCCTCACCGGTTTTTA
CAACGGAATC
Found at i:999107 original size:18 final size:18
Alignment explanation
Indices: 999086--999124 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
999076 TATATTAGGA
*
999086 TAATTACGGTACTTACAG
1 TAATTACGGTAATTACAG
* *
999104 TAATTATGGTAATTATAG
1 TAATTACGGTAATTACAG
999122 TAA
1 TAA
999125 AGGTTATATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (18 bp):
TAATTACGGTAATTACAG
Found at i:1005972 original size:15 final size:17
Alignment explanation
Indices: 1005939--1005980 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
1005929 GCAATTAGAG
1005939 TTAGGGTTTTGAGAATT
1 TTAGGGTTTTGAGAATT
*
1005956 TT-GGGTTTTTA-AATT
1 TTAGGGTTTTGAGAATT
1005971 TTAGGGTTTT
1 TTAGGGTTTT
1005981 AAAGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (17 bp):
TTAGGGTTTTGAGAATT
Found at i:1005981 original size:15 final size:15
Alignment explanation
Indices: 1005939--1005983 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
1005929 GCAATTAGAG
1005939 TTAGGGTTTTGAGAATT
1 TTAGGGTTTT-A-AATT
1005956 TT-GGGTTTTTAAATT
1 TTAGGG-TTTTAAATT
1005971 TTAGGGTTTTAAA
1 TTAGGGTTTTAAA
1005984 GAAAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 13 0.50
16 7 0.27
17 6 0.23
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (15 bp):
TTAGGGTTTTAAATT
Found at i:1006085 original size:95 final size:97
Alignment explanation
Indices: 1005970--1006176 Score: 233
Period size: 96 Copynumber: 2.1 Consensus size: 97
1005960 GTTTTTAAAT
* * ** *
1005970 TTTAGGGTTTTAAAG-AAAAAATTAAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAATTAC
1 TTTAGGGTTTTAAAGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA-
1006034 T-AATTTT-AAAAAATTAGATTATGGTTTAGTG
65 TAAATTTTAAAAAAATTAGATTATGGTTTAGTG
* * * * * *
1006065 TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTTGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTAAAGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTAT
* *
1006130 AAATTTTAAAAAAAATTAGATTAAGATTTTAG-G
66 AAATTTT-AAAAAAATTAGATTATG-GTTTAGTG
1006163 ATTTAGGGTTTTAA
1 -TTTAGGGTTTTAA
1006177 GGTATTTAAG
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
95 14 0.15
96 46 0.50
98 16 0.17
99 16 0.17
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (97 bp):
TTTAGGGTTTTAAAGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTAT
AAATTTTAAAAAAATTAGATTATGGTTTAGTG
Found at i:1006085 original size:96 final size:97
Alignment explanation
Indices: 1005977--1006152 Score: 239
Period size: 96 Copynumber: 1.8 Consensus size: 97
1005967 AATTTTAGGG
* * ** *
1005977 TTTTAAAGAAAAAATTAAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAATTACT-AATTTT
1 TTTTAAAGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA-TAAATTTT
1006041 -AAAAAATTAGATTATGGTTTAGTGTTTATGGT
65 AAAAAAATTAGATTATGGTTTAGTGTTTATGGT
* * * *
1006073 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTTGGGTTACTTGAGTAAATTAATTATAAATTTTA
1 TTTTAAAGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTT-
1006138 AAAAAAATTAGATTA
65 AAAAAAATTAGATTA
1006153 AGATTTTAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
95 1 0.01
96 53 0.78
98 14 0.21
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (97 bp):
TTTTAAAGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
AAAAAATTAGATTATGGTTTAGTGTTTATGGT
Found at i:1006480 original size:126 final size:126
Alignment explanation
Indices: 1006262--1006798 Score: 819
Period size: 126 Copynumber: 4.3 Consensus size: 126
1006252 AAAAGCTTCT
* *
1006262 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* *
1006327 ATAGTGTCAAAAACGTTTCAAGTAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
1006388 ACGTGGACGCTCTTCTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
1006453 ATAGTGTAAAAAACGTTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
1006514 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTG-AAAAA-AATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * * * *
1006577 ATAGTGGT-AAAAACGCTTCCAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCTC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
1006638 ACGTGGATGCTCTTTTGCTACAATGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
1006703 ATAGTGTCAAAAACGCTTCAAGCAGGATGTATTTTCAGCAAAAGTACTAAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
1006764 ACGTGGACGCTATTTTGCTACAATGGTCTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
1006799 TAACTTGGGC
Statistics
Matches: 377, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
124 105 0.28
125 14 0.04
126 258 0.68
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:1006697 original size:250 final size:251
Alignment explanation
Indices: 1006248--1006798 Score: 847
Period size: 250 Copynumber: 2.2 Consensus size: 251
1006238 TTTTGTTAAT
*
1006248 CTAAAA-AAGCTTCTACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAA
1 CTAAAAGAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTG-AAAAATAAATTTGAGAA
* *
1006312 GACGTGTCTGCGCAAATAGTGTCAAAAACGTTTCAAGTAGGATGCATTGTCAGCAAAAGTACTGA
65 GACGTGTCTGCGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGA
*
1006377 AAGAAGCTCCCACGTGGACGCTCTTCTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACG
130 AAGAAGCTCCCACGTGGACGCTCTTCTGCTACAATAGTATCTGAAAAAATAATTTTGAGAAGACG
*
1006442 TGTCTGCACAAATAGTGTAAAAAACGTTTCAAGCAGGATGCATTGTCAGCAAAAGTA
195 TGTCTGCACAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTA
* *
1006499 CTGAAAGAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAA-AATTTTGAGAAG
1 CTAAAAGAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAATAAATTTGAGAAG
* * * *
1006563 ACGTGTCTGCGCAAATAGTGGT-AAAAACGCTTCCAGCAGGATGCATTTTCAGCAAAATTACTGG
66 ACGTGTCTGCGCAAATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGA
* * * * *
1006627 AAGAAGCTCTCACGTGGATGCTCTTTTGCTACAATGGTCTCTGAAAAAATAATTTTGAGAAGACG
130 AAGAAGCTCCCACGTGGACGCTCTTCTGCTACAATAGTATCTGAAAAAATAATTTTGAGAAGACG
* * * *
1006692 TGTCTGCATAAATAGTGTCAAAAACGCTTCAAGCAGGATGTATTTTCAGCAAAAGTA
195 TGTCTGCACAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTA
* * * *
1006749 CTAAAAGAAGCTCCCACGTGGACGCTATTTTGCTACAATGGTCTCTGAAA
1 CTAAAAGAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
1006799 TAACTTGGGC
Statistics
Matches: 273, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
250 222 0.81
251 12 0.04
252 39 0.14
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (251 bp):
CTAAAAGAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAATAAATTTGAGAAG
ACGTGTCTGCGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAA
AGAAGCTCCCACGTGGACGCTCTTCTGCTACAATAGTATCTGAAAAAATAATTTTGAGAAGACGT
GTCTGCACAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTA
Done.