Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003805.1 Hibiscus syriacus cultivar Beakdansim tig00008145_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: 2300233
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:752652 original size:18 final size:18
Alignment explanation
Indices: 752609--752699 Score: 73
Period size: 18 Copynumber: 5.2 Consensus size: 18
752599 TTATTCTACC
752609 TTTGATAACTATAAAA-CA
1 TTTGATAACTA-AAAATCA
752627 TCTT-ATAACTAAAAATCA
1 T-TTGATAACTAAAAATCA
* **
752645 TTTGATAATTGTAAAT-A
1 TTTGATAACTAAAAATCA
* *
752662 TTTGATATCTTAAAATCA
1 TTTGATAACTAAAAATCA
* *
752680 TCTGATAACTATAAAT-A
1 TTTGATAACTAAAAATCA
752697 TTT
1 TTT
752700 AGAATTCATC
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
17 22 0.39
18 33 0.58
19 2 0.04
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (18 bp):
TTTGATAACTAAAAATCA
Found at i:753285 original size:16 final size:15
Alignment explanation
Indices: 753264--753293 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
753254 GTAACTATAC
753264 TGATATAAGAATCCAA
1 TGATATAAG-ATCCAA
753280 TGATATAAGATCCA
1 TGATATAAGATCCA
753294 TCCTCTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
TGATATAAGATCCAA
Found at i:758951 original size:30 final size:32
Alignment explanation
Indices: 758903--758985 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
758893 TACTTCTGTT
* * *
758903 TGAGGCACCTATAGTCATACTA-C-CTTCTCTC
1 TGAGGCACC-AAATTCATACTACCACATCTCTC
*
758934 TGAGGCACCAAATTCATACTACCACATCTCTT
1 TGAGGCACCAAATTCATACTACCACATCTCTC
*
758966 TGAGGAACCCAAATTCATAC
1 TGAGGCA-CCAAATTCATAC
758986 CTTTATCTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
30 10 0.23
31 10 0.23
32 12 0.27
33 12 0.27
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (32 bp):
TGAGGCACCAAATTCATACTACCACATCTCTC
Found at i:761586 original size:30 final size:30
Alignment explanation
Indices: 761517--761590 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
761507 CTAAGCACCT
* * * ** *
761517 AATAATACAGGGACTTGGCAATAAATTTTG
1 AATAATATAGGGACTTGGAAAAAAAGATTA
*
761547 AATAGTATAGGGACTTGGAAAAAAAGATTA
1 AATAATATAGGGACTTGGAAAAAAAGATTA
761577 AATAATATAGGGAC
1 AATAATATAGGGAC
761591 CAAGGCTACC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.26
Consensus pattern (30 bp):
AATAATATAGGGACTTGGAAAAAAAGATTA
Found at i:763543 original size:4 final size:4
Alignment explanation
Indices: 763534--763562 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
763524 TTATTTTTCA
763534 TTAT TTAT TTAT TTA- TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
763563 TTAAAGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:763551 original size:15 final size:15
Alignment explanation
Indices: 763523--763562 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
763513 TTCATTCGAT
*
763523 TTTATTT-TTCATTA
1 TTTATTTATTTATTA
763537 TTTATTTATTTATTA
1 TTTATTTATTTATTA
763552 TTTATTTATTT
1 TTTATTTATTT
763563 TTAAAGGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTTATTTATTA
Found at i:764017 original size:14 final size:15
Alignment explanation
Indices: 763998--764028 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
763988 AAACAAAGGG
763998 AGAGAAGAGAA-AAA
1 AGAGAAGAGAATAAA
764012 AGAGAAGAGAATAAA
1 AGAGAAGAGAATAAA
764027 AG
1 AG
764029 GGAGAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
AGAGAAGAGAATAAA
Found at i:765036 original size:24 final size:27
Alignment explanation
Indices: 764998--765051 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
764988 TATAAAATGC
* *
764998 TTATTTTTATTATTTGCT-AA-TATTT
1 TTATTTGTATTATTTACTCAAGTATTT
765023 TTATTTGT-TTATTTACTCAAGTATTT
1 TTATTTGTATTATTTACTCAAGTATTT
765049 TTA
1 TTA
765052 ACAACATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 9 0.36
26 8 0.32
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (27 bp):
TTATTTGTATTATTTACTCAAGTATTT
Found at i:782061 original size:22 final size:21
Alignment explanation
Indices: 782021--782061 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
782011 TCGAGAAAAA
**
782021 TTTAAAAAATAAATTAAATTC
1 TTTAAAAAATAAAGAAAATTC
782042 TTTAAAAAATAAAAGAAAAT
1 TTTAAAAAAT-AAAGAAAAT
782062 AAAAAGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTAAAAAATAAAGAAAATTC
Found at i:782066 original size:11 final size:11
Alignment explanation
Indices: 782047--782077 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
782037 AATTCTTTAA
782047 AAAAT-AAAAG
1 AAAATAAAAAG
782057 AAAATAAAAAG
1 AAAATAAAAAG
782068 AAAATAAAAA
1 AAAATAAAAA
782078 TACTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (11 bp):
AAAATAAAAAG
Found at i:782529 original size:55 final size:56
Alignment explanation
Indices: 782468--782577 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 56
782458 ATATCTTTTA
* * *
782468 AATTTAAAATATTAAACAAATATACACTTCT-TTTATTATTCAAA-TTAAAAAAATT
1 AATTTAAAATATTAAA-AAATATACAATTATCTTTAATATTCAAAGTTAAAAAAATT
* *
782523 AATTTAAAATATTAAAAAGTATATAATTATCTTTAATATTCAAAGTTAAAAAAAT
1 AATTTAAAATATTAAAAAATATACAATTATCTTTAATATTCAAAGTTAAAAAAAT
782578 AATAAATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 10 0.21
55 28 0.58
56 10 0.21
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (56 bp):
AATTTAAAATATTAAAAAATATACAATTATCTTTAATATTCAAAGTTAAAAAAATT
Found at i:782602 original size:55 final size:54
Alignment explanation
Indices: 782471--782589 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 54
782461 TCTTTTAAAT
* * * * *
782471 TTAAAATATTAAACAAATATACACTTCT-TTTATTATTCAAATTAAAAAAATTAA
1 TTAAAATATTAAA-AAGTATATAATTATCTTTAATATTCAAATTAAAAAAATTAA
782525 TTTAAAATATTAAAAAGTATATAATTATCTTTAATATTCAAAGTTAAAAAAA-TAA
1 -TTAAAATATTAAAAAGTATATAATTATCTTTAATATTCAAA-TTAAAAAAATTAA
782580 -TAAATATATT
1 TTAAA-ATATT
782590 TTAAATTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
53 4 0.07
54 15 0.27
55 28 0.50
56 9 0.16
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (54 bp):
TTAAAATATTAAAAAGTATATAATTATCTTTAATATTCAAATTAAAAAAATTAA
Found at i:783558 original size:20 final size:20
Alignment explanation
Indices: 783533--783575 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
783523 TGGCTCAAAT
783533 GATTGATCCCTTATTAAAAA
1 GATTGATCCCTTATTAAAAA
783553 GATTGATCCCTTATTAAAAA
1 GATTGATCCCTTATTAAAAA
783573 GAT
1 GAT
783576 CGATTCCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (20 bp):
GATTGATCCCTTATTAAAAA
Found at i:783693 original size:21 final size:20
Alignment explanation
Indices: 783652--783695 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
783642 TGGATCGATA
**
783652 CCTTCACAAAAGGATTTATC
1 CCTTCACAAAAGGATCAATC
783672 CCTTCACCAAAAGGATCAATC
1 CCTTCA-CAAAAGGATCAATC
783693 CCT
1 CCT
783696 CGATGAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.25
Consensus pattern (20 bp):
CCTTCACAAAAGGATCAATC
Found at i:784482 original size:7 final size:8
Alignment explanation
Indices: 784465--784490 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
784455 CATTATATTT
784465 AAAAAGAA
1 AAAAAGAA
784473 AAAAAGAA
1 AAAAAGAA
784481 AAAAAGAA
1 AAAAAGAA
784489 AA
1 AA
784491 CCCACCCCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:786645 original size:58 final size:59
Alignment explanation
Indices: 786574--786794 Score: 318
Period size: 59 Copynumber: 3.8 Consensus size: 59
786564 TTTCCCATAT
* * ** *
786574 GGAAATTCATACACTTAGTATGAATCTCTCAAC-GGTTTGCACACAAAGTGTCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATAC
*
786632 GGAAATTCATACACTGAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATAC
* * * *
786691 AGAAATTCATACACTTAGTATGATTTTCTTAACATTTTTGCACACGAAGTGCCCAATGC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATAC
* * *
786750 TGAAATTCATACACTTAGTACGAATTTCTTGACATTTTTGCACAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACAC
786795 TTAGTGGCAT
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 30 0.20
59 117 0.80
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATAC
Found at i:787324 original size:94 final size:95
Alignment explanation
Indices: 787151--787347 Score: 267
Period size: 94 Copynumber: 2.1 Consensus size: 95
787141 CATGGTATCG
* * *
787151 ATACTGCCATACTATGGTACTGATACCCCCTTTCGATATCGATACCAATTTTAGATTCGATGTGA
1 ATACTACCATACTAGGGTACTGATACCCCCTTTCGATATCGATACCAATTTTAGATTCAATGTGA
787216 CCTGGTATCGATACCATTACCATGACATCA
66 CCTGGTATCGATACCATTACCATGACATCA
*
787246 ATACTACCATACTAGGGTACTGATA-CCCC-TTCTGGTATCGATACCACA-TTTAGATTCAATGT
1 ATACTACCATACTAGGGTACTGATACCCCCTTTC-GATATCGATACCA-ATTTTAGATTCAATG-
* ** *
787308 TG-CCTGGTATCGATACCCTTACCATGGTATCG
63 TGACCTGGTATCGATACCATTACCATGACATCA
787340 ATACTACC
1 ATACTACC
787348 TCGTCAGTAT
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
93 3 0.03
94 62 0.68
95 26 0.29
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (95 bp):
ATACTACCATACTAGGGTACTGATACCCCCTTTCGATATCGATACCAATTTTAGATTCAATGTGA
CCTGGTATCGATACCATTACCATGACATCA
Found at i:792224 original size:61 final size:61
Alignment explanation
Indices: 792129--792252 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
792119 TTCAATTTTG
792129 CAATCGGTGCAAAAGTCTCCTGGTAGTCGATGCCATAGGACTGAGAAAAACATTTAGCAAC
1 CAATCGGTGCAAAAGTCTCCTGGTAGTCGATGCCATAGGACTGAGAAAAACATTTAGCAAC
792190 CAATCGGTGCAAAAGTCTCCTGGTAGTCGATGCCATAGGACTGAGAAAAACATTTAGCAAC
1 CAATCGGTGCAAAAGTCTCCTGGTAGTCGATGCCATAGGACTGAGAAAAACATTTAGCAAC
792251 CA
1 CA
792253 GCCTTGCCTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (61 bp):
CAATCGGTGCAAAAGTCTCCTGGTAGTCGATGCCATAGGACTGAGAAAAACATTTAGCAAC
Found at i:792981 original size:51 final size:51
Alignment explanation
Indices: 792920--793020 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
792910 TAAGGAAATG
** * *
792920 ATAGGATGTAAAGAAATATCGGTTTGGGCATGTTGAAATTCCTTGTAACTA
1 ATAGGATGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
*
792971 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
1 ATAGGATGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
793021 CTCCCCCTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (51 bp):
ATAGGATGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
Found at i:798030 original size:15 final size:15
Alignment explanation
Indices: 798012--798041 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
798002 AAAACCATGT
798012 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
798027 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
798042 GAAATAAATA
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:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:798048 original size:15 final size:15
Alignment explanation
Indices: 798015--798049 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
798005 ACCATGTTAG
* *
798015 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
798030 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
798045 ATAAA
1 ATAAA
798050 TAAATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:798258 original size:29 final size:30
Alignment explanation
Indices: 798204--798261 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
798194 ATAAAATATT
* *
798204 AATAAAAAAGTAAAAATGATATATATATAA
1 AATAAAAAAGTAAAAAAGATAAATATATAA
798234 AATAAAAAA-TAAAAAA-AGTAAATATATA
1 AATAAAAAAGTAAAAAAGA-TAAATATATA
798262 TATATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 15 0.60
30 9 0.36
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (30 bp):
AATAAAAAAGTAAAAAAGATAAATATATAA
Found at i:798381 original size:22 final size:21
Alignment explanation
Indices: 798327--798387 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
798317 TGAAAAAAAT
798327 AAAAATATATAC-T-AAAGTAA
1 AAAAATAT-TACATAAAAGTAA
* *
798347 AAAAGAAAATACATAAAATGTAA
1 AAAA-ATATTACATAAAA-GTAA
798370 AAAAATATTACATGAAAA
1 AAAAATATTACAT-AAAA
798388 AAAAAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 10 0.31
23 12 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATATTACATAAAAGTAA
Found at i:798757 original size:34 final size:34
Alignment explanation
Indices: 798714--798782 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
798704 GAATCCTAGC
798714 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
798748 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
798782 A
1 A
798783 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:799547 original size:98 final size:98
Alignment explanation
Indices: 799378--799636 Score: 304
Period size: 98 Copynumber: 2.6 Consensus size: 98
799368 TGGAACCGGA
* * *
799378 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
1 AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
* * *
799443 ATATCCTTCGTTGTGAAGTTGAGATTGGCTCCG
66 ATATCCTCCGCTGTGAAGTTGAAATTGGCTCCG
** * * *
799476 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCA
1 AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
799541 ATATCCTCCGCTGTGAAGTTGAAATTGGC-CCTG
66 ATATCCTCCGCTGTGAAGTTGAAATTGGCTCC-G
* * * *
799574 AAACTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
1 AAA-T-TG----T-TTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
799637 ATAGGTAGCA
Statistics
Matches: 135, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
97 2 0.01
98 87 0.64
99 1 0.01
100 1 0.01
104 1 0.01
105 43 0.32
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.34
Consensus pattern (98 bp):
AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
ATATCCTCCGCTGTGAAGTTGAAATTGGCTCCG
Found at i:799630 original size:105 final size:102
Alignment explanation
Indices: 799378--799736 Score: 295
Period size: 105 Copynumber: 3.5 Consensus size: 102
799368 TGGAACCGGA
* *
799378 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC-TCGAGT-C
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCATAG-GTAC
* * ** * ** ** **
799441 CA-ATATCCTTCGTTGT-GAAGTTGAG-ATTG-GCTCCG
64 CAGATATCCTCCGTCGTGGAAAATCAGCCCTGAAATGGG
** * * * * *
799476 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCATAGGTACC
* **
799540 A-ATATCCTCCG-CTGTGAAGTTGAAATTGGCCCTGAAACTGGG
65 AGATATCCTCCGTC-GTG--G--AAAATCAGCCCTGAAA-TGGG
* *
799582 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCATAGGTAGCA
1 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCATAGGTACCA
** *
799647 TGATATCCTCCGTCGTGGAAAATCAGCTTTGAAATTGG
66 -GATATCCTCCGTCGTGGAAAATCAGCCCTGAAATGGG
799685 AAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
1 AAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG
799737 TTTTCTTGAG
Statistics
Matches: 210, Mismatches: 35, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
98 66 0.31
99 2 0.01
101 1 0.00
103 9 0.04
104 18 0.09
105 89 0.42
106 11 0.05
108 13 0.06
109 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (102 bp):
AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCATAGGTACCA
GATATCCTCCGTCGTGGAAAATCAGCCCTGAAATGGG
Found at i:800475 original size:31 final size:31
Alignment explanation
Indices: 800440--800567 Score: 73
Period size: 31 Copynumber: 3.9 Consensus size: 31
800430 AGGAAATAAA
800440 CTCAAAG-ATTTTGTGTTTCAAGAGAAACTGT
1 CTCAAAGAATTTTGTGTTTCAAGAGAAACT-T
** * *
800471 CTCAAGGGAGACAAAATT-TGTTTCAAGGGAAACAAT
1 CTCAA---AG--AATTTTGTGTTTCAAGAGAAAC-TT
* *
800507 CTCAAAG-GTTTTGTGTTTCAAGAGAAGCCTT
1 CTCAAAGAATTTTGTGTTTCAAGAGAA-ACTT
* **
800538 TTCAAAGGTTTTTTGTGTTTCAAGAGAAAC
1 CTCAAA-GAATTTTGTGTTTCAAGAGAAAC
800568 AATTTCAAAG
Statistics
Matches: 73, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
30 2 0.03
31 23 0.32
32 3 0.04
33 20 0.27
34 2 0.03
36 20 0.27
37 3 0.04
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (31 bp):
CTCAAAGAATTTTGTGTTTCAAGAGAAACTT
Found at i:800527 original size:67 final size:67
Alignment explanation
Indices: 800346--800532 Score: 239
Period size: 67 Copynumber: 2.7 Consensus size: 67
800336 TAAAAAAGAG
* * * * *
800346 AAAATTCGTTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTCATGAGAAACGGCCTCAAGGG
1 AAAATTTGTTTCAAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTCAAGGG
800411 AGAC
64 AGAC
* * * * * *
800415 AAAATTTTGTTTTAAAGGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGA
1 AAAA-TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAGGGA
800480 GAC
65 GAC
*
800483 AAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAA
1 AAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAA
800533 GCCTTTTCAA
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
67 41 0.41
68 31 0.31
69 7 0.07
70 22 0.22
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (67 bp):
AAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAGGGAG
AC
Found at i:800594 original size:36 final size:33
Alignment explanation
Indices: 800489--800603 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
800479 AGACAAAATT
* *
800489 TGTTTCAAGGGAAACAATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
* **
800520 TGTTTCAAGAGAAGCCTTTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
800553 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG--T-TTTTTG
800589 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
800604 TGTATCAAGG
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
31 21 0.30
33 28 0.39
35 1 0.01
36 21 0.30
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.37
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
Found at i:800754 original size:36 final size:36
Alignment explanation
Indices: 800645--801121 Score: 202
Period size: 36 Copynumber: 13.9 Consensus size: 36
800635 CAAGGATTGA
*
800645 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
800682 TGTTTTAAGAAAAACATGTCTTAAGATAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
800719 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
800755 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
800784 TGTTTCAAGGGAAACTGTTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
800813 ATGTTTCAATAGAAACTGTCTCAA-AGGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* * *
800850 TGTTTCAAGGGAAACTATCTGAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
800886 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* * *
800914 ATGTTTCAAGAGAAATTGTCTCAATG-GAGACGGAATTT
1 -TGTTTCAAGAGAAACTGTCTCAA-GAGAGAC-AAAATT
* * *
800952 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
800988 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
801016 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
801054 TGTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
801090 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
801122 TGGTGAGCAT
Statistics
Matches: 336, Mismatches: 60, Indels: 89
0.69 0.12 0.18
Matches are distributed among these distances:
28 4 0.01
29 48 0.14
30 31 0.09
32 4 0.01
33 4 0.01
34 3 0.01
35 7 0.02
36 126 0.38
37 88 0.26
38 21 0.06
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:800809 original size:30 final size:30
Alignment explanation
Indices: 800773--800831 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
800763 GTAAAACATA
*
800773 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTGTT
*
800803 TTCAAAGTTTATGTTTCAATAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
800832 CTCAAAGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:800978 original size:102 final size:101
Alignment explanation
Indices: 800786--801103 Score: 474
Period size: 102 Copynumber: 3.1 Consensus size: 101
800776 AAAGATTTTG
* * *
800786 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAATAGAAACTGTCTCAAAGGAGACAAAATTT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAATTTT
*
800851 GTTTCAAGGGAAACTATCTGAAGAGAGACAAAATTCA
65 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* * *
800888 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAATGGAGACGGAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGAC-AAATTTT
*
800953 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCA
65 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
800990 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAG-ACAAATTTT
* * * **
801055 GTTTCAAGGGAAACTGTCTCAACAGAGACAAAGTTTG
65 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
801092 TTTCAAGGGAAA
1 TTTCAAGGGAAA
801104 CTGTCTCAAG
Statistics
Matches: 196, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
101 41 0.21
102 154 0.79
103 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (101 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAATTTTG
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:802007 original size:22 final size:22
Alignment explanation
Indices: 801982--802032 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
801972 TTGTGTTTGG
801982 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
802004 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
802026 TCAAAGG
1 TCAAAGG
802033 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:802694 original size:8 final size:7
Alignment explanation
Indices: 802670--802759 Score: 54
Period size: 8 Copynumber: 11.7 Consensus size: 7
802660 TTTTTGTCCC
802670 TTTTTCT
1 TTTTTCT
**
802677 TTTTGAT
1 TTTTTCT
*
802684 TTTTGCTT
1 TTTTTC-T
802692 TTTTTCCT
1 TTTTT-CT
802700 TTTGTTCT
1 TTT-TTCT
*
802708 TGTTTCT
1 TTTTTCT
802715 CTTTTTCT
1 -TTTTTCT
*
802723 TTGTTTTT
1 TT-TTTCT
802731 TTTTTGCT
1 TTTTT-CT
802739 TTTTTGCT
1 TTTTT-CT
*
802747 TCATTTCT
1 T-TTTTCT
802755 TTTTT
1 TTTTT
802760 GTTCTTGATT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
7 22 0.33
8 38 0.58
9 6 0.09
ACGTcount: A:0.02, C:0.13, G:0.08, T:0.77
Consensus pattern (7 bp):
TTTTTCT
Found at i:806451 original size:15 final size:15
Alignment explanation
Indices: 806433--806462 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
806423 AAAACCATGT
806433 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
806448 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
806463 GAAATAAATA
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:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:806469 original size:15 final size:15
Alignment explanation
Indices: 806436--806470 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
806426 ACCATGTTAG
* *
806436 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
806451 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
806466 ATAAA
1 ATAAA
806471 TAAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:806610 original size:13 final size:13
Alignment explanation
Indices: 806565--806682 Score: 50
Period size: 13 Copynumber: 9.1 Consensus size: 13
806555 AAATATATAA
*
806565 AAAATAAAGAAAA
1 AAAATAAAGAAAT
* *
806578 AGAAGAAAAAGGAAAA
1 A-AA-ATAAA-GAAAT
*
806594 AAAATATAGAAAT
1 AAAATAAAGAAAT
* *
806607 AAAACAAATAAAT
1 AAAATAAAGAAAT
*
806620 AAAAT-AA-TAAT
1 AAAATAAAGAAAT
806631 AAAA-AAAGTAAA-
1 AAAATAAAG-AAAT
* * *
806643 AATAATATATATAT
1 AA-AATAAAGAAAT
806657 AAAATAAA-AAAT
1 AAAATAAAGAAAT
806669 AAAA-AAAGTAAAT
1 AAAATAAAG-AAAT
806682 A
1 A
806683 TATATATATA
Statistics
Matches: 79, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
11 12 0.15
12 11 0.14
13 35 0.44
14 9 0.11
15 6 0.08
16 6 0.08
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (13 bp):
AAAATAAAGAAAT
Found at i:806631 original size:24 final size:24
Alignment explanation
Indices: 806594--806672 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
806584 AAAAGGAAAA
*
806594 AAAATATAGAAATAAAACAAATAAAT
1 AAAATATA-TAATAAAA-AAATAAAT
806620 AAAATA-ATAATAAAAAAAGTAAA-
1 AAAATATATAATAAAAAAA-TAAAT
806643 AATAATATATATATAAAATAAA-AAAT
1 AA-AATATATA-ATAAAA-AAATAAAT
806669 AAAA
1 AAAA
806673 AAAGTAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
23 5 0.11
24 15 0.33
25 9 0.20
26 14 0.30
27 3 0.07
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.22
Consensus pattern (24 bp):
AAAATATATAATAAAAAAATAAAT
Found at i:806644 original size:21 final size:22
Alignment explanation
Indices: 806616--806666 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
806606 TAAAACAAAT
806616 AAAT-AAAATAATA-ATA-AAA
1 AAATAAAAATAATATATATAAA
*
806635 AAAGTAAAAATAATATATATATA
1 AAA-TAAAAATAATATATATAAA
806658 AAATAAAAA
1 AAATAAAAA
806667 ATAAAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 1 0.04
21 9 0.33
22 9 0.33
23 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATAAAAATAATATATATAAA
Found at i:806666 original size:31 final size:34
Alignment explanation
Indices: 806603--806690 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 34
806593 AAAAATATAG
806603 AAATAAAACAAA-TAAATA-A-A-ATAATAATAAA
1 AAATAAAA-AAAGTAAATATATATATAATAATAAA
*
806634 AAA-AGTAAAAA-T-AATATATATATAA-AATAAA
1 AAATA-AAAAAAGTAAATATATATATAATAATAAA
806665 AAATAAAAAAAGTAAATATATATATA
1 AAATAAAAAAAGTAAATATATATATA
806691 TATATATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
29 4 0.08
30 6 0.12
31 20 0.42
32 6 0.12
33 12 0.25
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.24
Consensus pattern (34 bp):
AAATAAAAAAAGTAAATATATATATAATAATAAA
Found at i:806671 original size:29 final size:32
Alignment explanation
Indices: 806606--806686 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 32
806596 AATATAGAAA
*
806606 TAAAACAAA-TAAATAAAATAATAATAAAAAAAG
1 TAAAA-AAAGTAAAT-ATATAATAATAAAAAAAG
*
806639 TAAAAATAA-TATATATATAA-AAT-AAAAAA-
1 TAAAAA-AAGTAAATATATAATAATAAAAAAAG
806668 TAAAAAAAGTAAATATATA
1 TAAAAAAAGTAAATATATA
806687 TATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
28 2 0.05
29 15 0.35
30 6 0.14
31 3 0.07
32 6 0.14
33 11 0.26
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (32 bp):
TAAAAAAAGTAAATATATAATAATAAAAAAAG
Found at i:806673 original size:37 final size:39
Alignment explanation
Indices: 806618--806705 Score: 126
Period size: 38 Copynumber: 2.3 Consensus size: 39
806608 AAACAAATAA
*
806618 ATAAAAT-AATAATAAAAAAAGTAAAAATA-ATATATAT
1 ATAAAATAAAAAATAAAAAAAGTAAAAATATATATATAT
*
806655 ATAAAATAAAAAATAAAAAAAGTAAATATATATATATAT
1 ATAAAATAAAAAATAAAAAAAGTAAAAATATATATATAT
*
806694 ATATTAATAAAA
1 ATA-AAATAAAA
806706 CTGATAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 7 0.16
38 20 0.44
39 11 0.24
40 7 0.16
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.28
Consensus pattern (39 bp):
ATAAAATAAAAAATAAAAAAAGTAAAAATATATATATAT
Found at i:806807 original size:22 final size:21
Alignment explanation
Indices: 806753--806813 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
806743 GAAAAAAAAT
806753 AAAAATATATAC-T-AAAGTAA
1 AAAAATAT-TACATAAAAGTAA
* *
806773 AAAAGAAAATACATAAAATGTAA
1 AAAA-ATATTACATAAAA-GTAA
806796 AAAAATATTACATGAAAA
1 AAAAATATTACAT-AAAA
806814 AAAAAAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 10 0.31
23 12 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATATTACATAAAAGTAA
Found at i:807184 original size:34 final size:34
Alignment explanation
Indices: 807141--807209 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
807131 GAATCCTAGC
807141 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
807175 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
807209 A
1 A
807210 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:807440 original size:59 final size:59
Alignment explanation
Indices: 807310--807528 Score: 359
Period size: 59 Copynumber: 3.7 Consensus size: 59
807300 TCTCATATGG
* ** *
807310 AAATTCATACACTTAGTATGAATCTCTTAAC-GGTTTGTACACAAAGTGCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGA
* *
807368 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAAAACAA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGA
* *
807427 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGA
807486 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACAC
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACAC
807529 TTAGTACCAT
Statistics
Matches: 150, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
58 30 0.20
59 120 0.80
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGA
Found at i:808024 original size:95 final size:95
Alignment explanation
Indices: 807879--808079 Score: 291
Period size: 95 Copynumber: 2.1 Consensus size: 95
807869 TTCTATCATT
* *
807879 GTATCGATACTACCATACTATGGTACCGATATCCCCTTCCAGTTTCGATA-CAAGTTTTAGATTC
1 GTATCGATACTACCATACTATGGTACCGATATCCCCTTCCAGTATAGATACCAA-TTTTAGATTC
* *
807943 GATGTGGCCTGGTATCGATACCCTTACCATG
65 AATATGGCCTGGTATCGATACCCTTACCATG
*
807974 GTATCGATGA-TACCATACTATGGTACCGATA-CCCCTTTCCGGTATAGATACCAATTTTAGATT
1 GTATCGAT-ACTACCATACTATGGTACCGATATCCCC-TTCCAGTATAGATACCAATTTTAGATT
*
808037 CAATATTGCCTGGTATCGATACCCTTACCATG
64 CAATATGGCCTGGTATCGATACCCTTACCATG
*
808069 GTATCAATACT
1 GTATCGATACT
808080 TATTGAATCA
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
94 5 0.05
95 86 0.91
96 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (95 bp):
GTATCGATACTACCATACTATGGTACCGATATCCCCTTCCAGTATAGATACCAATTTTAGATTCA
ATATGGCCTGGTATCGATACCCTTACCATG
Found at i:810598 original size:33 final size:33
Alignment explanation
Indices: 810561--810625 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
810551 GTGGAGCAGG
*
810561 TGCACCAGTTGAAGATGA-TCGAAACCCTGGAGA
1 TGCACCAATTGAAGATGAGT-GAAACCCTGGAGA
*
810594 TGCACCAATTGAAGATGAGTGAAACCTTGGAG
1 TGCACCAATTGAAGATGAGTGAAACCCTGGAG
810626 GTTCTAGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (33 bp):
TGCACCAATTGAAGATGAGTGAAACCCTGGAGA
Found at i:813155 original size:4 final size:4
Alignment explanation
Indices: 813148--813294 Score: 51
Period size: 4 Copynumber: 36.0 Consensus size: 4
813138 ATAGTAAGTA
* * *
813148 AAAT AAAT AAAT -AAT AAA- ATAT ATAT AAA- AAAG AAA- AAGA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT
* *
813192 AAAT AAAT AAAAC AAAT AAAC AAA- ATAAT -AAT AAA- AAAGT ACGAAT
1 AAAT AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAA-T A--AAT
* * *
813238 AATAT ATAT ATAT ATAAT AAAT AAA- AAAGT AAAT ATATAT AAAT TAAT
1 AA-AT AAAT AAAT A-AAT AAAT AAAT AAA-T AAAT A-A-AT AAAT AAAT
813286 AAATT AAAT
1 AAA-T AAAT
813295 GATGAAAAGA
Statistics
Matches: 114, Mismatches: 9, Indels: 40
0.70 0.06 0.25
Matches are distributed among these distances:
3 21 0.18
4 67 0.59
5 19 0.17
6 5 0.04
7 2 0.02
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:813779 original size:12 final size:11
Alignment explanation
Indices: 813764--813793 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
813754 AAAATATAAA
813764 AATAATACAAG
1 AATAATACAAG
813775 TAATAATACAAG
1 -AATAATACAAG
813787 AATAATA
1 AATAATA
813794 AAAAGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (11 bp):
AATAATACAAG
Found at i:813854 original size:27 final size:26
Alignment explanation
Indices: 813811--813861 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 26
813801 AGAGAAAGTA
813811 AAAAAATATAATAATAATA-AAATAT
1 AAAAAATATAATAATAATATAAATAT
813836 AAAAAATATACATATATAATATAAAT
1 AAAAAATATA-ATA-ATAATATAAAT
813862 TAGTAGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 3 0.13
27 6 0.26
28 4 0.17
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
AAAAAATATAATAATAATATAAATAT
Found at i:813899 original size:12 final size:12
Alignment explanation
Indices: 813877--813921 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
813867 GAATAAAAGG
813877 AAAATATAATAGT
1 AAAA-ATAATAGT
*
813890 AAAAATAATAAT
1 AAAAATAATAGT
*
813902 AAATATAATAGT
1 AAAAATAATAGT
*
813914 AATAATAA
1 AAAAATAA
813922 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:814568 original size:37 final size:37
Alignment explanation
Indices: 814493--814592 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 37
814483 GTGCTTGTGG
* * * ** *
814493 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAACTCT
*
814530 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAACTCT
*
814567 ATCCT-TTTTTATGAGTTTGAATCCTA
1 ATCCTATTTTTAGGAGTTTGAATCCTA
814593 GTAGGACGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 20 0.36
37 35 0.64
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAACAAAACTCT
Found at i:815645 original size:106 final size:106
Alignment explanation
Indices: 815327--816690 Score: 1973
Period size: 106 Copynumber: 13.0 Consensus size: 106
815317 GCATTGTTCC
* * *
815327 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCT-AGAATCGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTGTTGAC
* *
815390 AACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
64 AACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
815433 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
815492 TCAGCCG-CCCTTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
66 CCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * * * *
815533 GGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGATGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
815598 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * * * *
815639 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTTGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
815704 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * *
815745 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
815810 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
815851 GAGTCCAATATCCTTCGC--T---G-TG-AA---G-T-TGAAATTGGGAAGTTGTTTATTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
815904 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
*
815945 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
816010 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * *
816051 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
816116 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * * *
816157 GAGTCCAATATCCTTCGCTATGAAGTTAAAATTGGCTCTGAAATTGGGAAATTCTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
816222 CCAGCGGTCCCTTCGTCGTGAAGTTGAAATTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
816263 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
816328 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT-TT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
816368 GTAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 G-AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
816433 ACCAGCGGTCCCTTCGTTGTTAAGTTGAACTTGCGTTATCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
*
816475 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
816540 CCAACGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* *
816581 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
816646 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
816687 GAGT
1 GAGT
816691 GGCACGATAT
Statistics
Matches: 1133, Mismatches: 100, Indels: 50
0.88 0.08 0.04
Matches are distributed among these distances:
94 80 0.07
95 1 0.00
96 2 0.00
99 7 0.01
100 83 0.07
101 6 0.01
102 4 0.00
104 4 0.00
105 6 0.01
106 934 0.82
107 6 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
Found at i:815880 original size:43 final size:43
Alignment explanation
Indices: 815819--815974 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 43
815809 ACCAGTGGTC
815819 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * ** * *
815862 CCTTCG-CTGTGAAGTTGAAATTGGGAAGTTGTTTATTGAAAACCAGTGGT
1 CCTTCGTC-GTGAAGTTGAACTT--G-CGTTG--T-CTGGAGTCCAAT-AT
* *
815912 CCCTTCGTCGTGAAGTTGAACTTGCGTTATCTTGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
815956 CCTTCG-CTGTGAAGTTGAA
1 CCTTCGTC-GTGAAGTTGAA
815975 ATTGGCTCTG
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
42 2 0.02
43 36 0.43
44 1 0.01
45 7 0.08
46 5 0.06
48 4 0.05
49 8 0.10
50 1 0.01
51 19 0.23
52 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:818271 original size:22 final size:20
Alignment explanation
Indices: 818239--818310 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 20
818229 TTTTTGTCCC
818239 TTTTTC-CTTTTGATTTTTG-T
1 TTTTTCTCTTTT--TTTTTGTT
* *
818259 TCTTTCT-TTTTTTTCT-TT
1 TTTTTCTCTTTTTTTTTGTT
818277 TTTTTCTCTTTTTTCTTTGTT
1 TTTTTCTCTTTTTT-TTTGTT
818298 TTTTTCTGCTTTT
1 TTTTTCT-CTTTT
818311 GCTTCTTTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.26
19 6 0.14
20 11 0.26
21 9 0.21
22 5 0.12
ACGTcount: A:0.01, C:0.14, G:0.06, T:0.79
Consensus pattern (20 bp):
TTTTTCTCTTTTTTTTTGTT
Found at i:818275 original size:9 final size:9
Alignment explanation
Indices: 818261--818300 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
818251 ATTTTTGTTC
818261 TTTCTTTTT
1 TTTCTTTTT
818270 TTTCTTTTT
1 TTTCTTTTT
*
818279 TTTCTCTTT
1 TTTCTTTTT
818288 TTTCTTTGTT
1 TTTCTTT-TT
818298 TTT
1 TTT
818301 TTCTGCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:818288 original size:18 final size:19
Alignment explanation
Indices: 818254--818300 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
818244 CCTTTTGATT
*
818254 TTTGTTCTTTCTTTTTTTTC
1 TTTGTT-TTTCTCTTTTTTC
818274 TTT-TTTTTCTCTTTTTTC
1 TTTGTTTTTCTCTTTTTTC
818292 TTTGTTTTT
1 TTTGTTTTT
818301 TTCTGCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 15 0.60
19 7 0.28
20 3 0.12
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (19 bp):
TTTGTTTTTCTCTTTTTTC
Found at i:818299 original size:21 final size:20
Alignment explanation
Indices: 818263--818324 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
818253 TTTTGTTCTT
818263 TCTTTTTTTTCTTTTTTTTC
1 TCTTTTTTTTCTTTTTTTTC
818283 TCTTTTTTCTT-TGTTTTTTTC
1 TCTTTTTT-TTCT-TTTTTTTC
**
818304 TGCTTTTGCTTCTTTTCTTTT
1 T-CTTTTTTTTCTTTT-TTTT
818325 TTGTTCTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 9 0.26
21 16 0.46
22 10 0.29
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (20 bp):
TCTTTTTTTTCTTTTTTTTC
Found at i:822781 original size:29 final size:27
Alignment explanation
Indices: 822726--822781 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
822716 AATAGTAAGT
* * *
822726 AAAAAAAACAAATAATAAAATATATAA
1 AAAAAAAAAAAATAATAAAACAAATAA
822753 AAAAAAAAGAAAATAAATAAAACAAATAA
1 AAAAAAAA-AAAAT-AATAAAACAAATAA
822782 CTAAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 4 0.17
29 12 0.50
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (27 bp):
AAAAAAAAAAAATAATAAAACAAATAA
Found at i:823313 original size:12 final size:11
Alignment explanation
Indices: 823286--823325 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
823276 TAACAAAATA
*
823286 AATAATATAA-
1 AATAATACAAG
823296 AATAATACAAG
1 AATAATACAAG
823307 TAATAATACAAG
1 -AATAATACAAG
823319 AATAATA
1 AATAATA
823326 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.33
11 7 0.26
12 11 0.41
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (11 bp):
AATAATACAAG
Found at i:823415 original size:23 final size:22
Alignment explanation
Indices: 823374--823439 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 22
823364 ATATACATAT
*
823374 AATATAAATTAGTAGAATAAAAGGA
1 AATAT-AA-TAGTAAAATAAAA-GA
*
823399 AATATAATAGTAAAAT--AATA
1 AATATAATAGTAAAATAAAAGA
823419 AATATAATAGTAATAATAAAA
1 AATATAATAGTAA-AATAAAA
823440 TGCAAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 14 0.39
21 5 0.14
23 10 0.28
24 2 0.06
25 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (22 bp):
AATATAATAGTAAAATAAAAGA
Found at i:823423 original size:20 final size:21
Alignment explanation
Indices: 823398--823437 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
823388 GAATAAAAGG
823398 AAATATAATAGTAA-AATAAT
1 AAATATAATAGTAATAATAAT
823418 AAATATAATAGTAATAATAA
1 AAATATAATAGTAATAATAA
823438 AATGCAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AAATATAATAGTAATAATAAT
Found at i:824045 original size:37 final size:37
Alignment explanation
Indices: 824004--824108 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
823994 GTGCTTGTGG
* * *
824004 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
824041 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
824078 ATCCTATTTTTATGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
824109 GACGAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:824933 original size:19 final size:20
Alignment explanation
Indices: 824888--824937 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
824878 TATGTAAAGT
824888 TACAACTCAATCAAACAACC
1 TACAACTCAATCAAACAACC
* *
824908 AACAACTCAATCAAAC-AGC
1 TACAACTCAATCAAACAACC
824927 TACAACTCAAT
1 TACAACTCAAT
824938 ATATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.50, C:0.32, G:0.02, T:0.16
Consensus pattern (20 bp):
TACAACTCAATCAAACAACC
Found at i:836562 original size:19 final size:20
Alignment explanation
Indices: 836517--836566 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
836507 TATGTAAAGT
836517 TACAACTCAATCAAACAACC
1 TACAACTCAATCAAACAACC
* *
836537 AACAACTCAATCAAAC-AGC
1 TACAACTCAATCAAACAACC
836556 TACAACTCAAT
1 TACAACTCAAT
836567 TTATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.50, C:0.32, G:0.02, T:0.16
Consensus pattern (20 bp):
TACAACTCAATCAAACAACC
Found at i:840579 original size:20 final size:19
Alignment explanation
Indices: 840554--840602 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 19
840544 ATGTAAAGTT
840554 ACAACTCAATCAAACAACCA
1 ACAACTCAATCAAACAA-CA
*
840574 ACAACTCAATCAAACAACT
1 ACAACTCAATCAAACAACA
840593 ACAACTCAAT
1 ACAACTCAAT
840603 ATATATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (19 bp):
ACAACTCAATCAAACAACA
Found at i:844048 original size:21 final size:18
Alignment explanation
Indices: 844010--844051 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 18
844000 TATGAGATGA
844010 TTATAAAATAATATTTAT
1 TTATAAAATAATATTTAT
844028 TTATAATAATAATGATGTTAT
1 TTATAA-AATAAT-AT-TTAT
844049 TTA
1 TTA
844052 ATTTTAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 6 0.29
20 2 0.10
21 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TTATAAAATAATATTTAT
Found at i:846271 original size:21 final size:21
Alignment explanation
Indices: 846217--846286 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
846207 AAAAAACATT
* * * *
846217 ATAATATAATATATATATATA
1 ATAATATAATAAAGAAAAATA
*
846238 ATGAATATAATAACGAAAAATA
1 AT-AATATAATAAAGAAAAATA
* *
846260 ATAATTTAATAAAGTAAAATA
1 ATAATATAATAAAGAAAAATA
846281 ATAATA
1 ATAATA
846287 ATGTAATATA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 23 0.59
22 16 0.41
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAATATAATAAAGAAAAATA
Found at i:846287 original size:16 final size:16
Alignment explanation
Indices: 846266--846303 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
846256 AATAATAATT
846266 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
846282 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
846298 T-ATAAA
1 TAATAAA
846304 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:846478 original size:49 final size:51
Alignment explanation
Indices: 846423--846531 Score: 204
Period size: 51 Copynumber: 2.2 Consensus size: 51
846413 ACATATAATG
846423 ATAATAATAGTAGCAAAAGAG-AAAA-ATATTTATATACGTTAATAGTAAA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
846472 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
846523 ATAATAATA
1 ATAATAATA
846532 TAATAGTTAT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
49 21 0.36
50 4 0.07
51 33 0.57
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.29
Consensus pattern (51 bp):
ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
Found at i:846496 original size:24 final size:24
Alignment explanation
Indices: 846423--846496 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
846413 ACATATAATG
846423 ATAATAATAGTAGCAAAAGAGAAAA
1 ATAATAATAGTAGCAAAAGAG-AAA
* * * * *
846448 ATATTTATA-TACGTTAATAG-TAAA
1 ATAATAATAGTA-G-CAAAAGAGAAA
846472 ATAATAATAGTAGCAAAAGAGAAA
1 ATAATAATAGTAGCAAAAGAGAAA
846496 A
1 A
846497 ATATATTTAT
Statistics
Matches: 35, Mismatches: 10, Indels: 9
0.65 0.19 0.17
Matches are distributed among these distances:
23 4 0.11
24 17 0.49
25 10 0.29
26 4 0.11
ACGTcount: A:0.58, C:0.04, G:0.14, T:0.24
Consensus pattern (24 bp):
ATAATAATAGTAGCAAAAGAGAAA
Found at i:846498 original size:25 final size:25
Alignment explanation
Indices: 846423--846499 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
846413 ACATATAATG
846423 ATAATAATAGTAGCAAAAGAGAAAA
1 ATAATAATAGTAGCAAAAGAGAAAA
* * ** * *
846448 ATATTTATA-TA-CGTTAATAGTAAA
1 ATAATAATAGTAGC-AAAAGAGAAAA
846472 ATAATAATAGTAGCAAAAGAGAAAA
1 ATAATAATAGTAGCAAAAGAGAAAA
846497 ATA
1 ATA
846500 TATTTATATA
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
23 1 0.03
24 16 0.43
25 19 0.51
26 1 0.03
ACGTcount: A:0.58, C:0.04, G:0.13, T:0.25
Consensus pattern (25 bp):
ATAATAATAGTAGCAAAAGAGAAAA
Found at i:847112 original size:36 final size:37
Alignment explanation
Indices: 847061--847136 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
847051 GTTTAAAACA
847061 TAGCAAAATTCTATCCTA-TTTTTAGGAG-TTGAATCC
1 TAGCAAAATTCTATCCTATTTTTTA-GAGTTTGAATCC
* *
847097 TAGCAGAATTTTATCCTATTTTTTAGAGTTTGAATCC
1 TAGCAAAATTCTATCCTATTTTTTAGAGTTTGAATCC
847134 TAG
1 TAG
847137 TAGGACGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 19 0.53
37 17 0.47
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
TAGCAAAATTCTATCCTATTTTTTAGAGTTTGAATCC
Found at i:847903 original size:106 final size:105
Alignment explanation
Indices: 847597--848117 Score: 511
Period size: 109 Copynumber: 4.9 Consensus size: 105
847587 AATATTGTTC
* * *
847597 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCT-GAAACGGAAAATTGTTTGTTGACA
** * ** * *
847662 GTCAGCCGCCCCTTCCCTGTGAAGTTGAGCTTGTGCTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
847703 TGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AAC-G-AAA-T-TTTGTTGACAA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAACGGAAAATTGTTTGTTGACAA
*
847763 TCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* ** *
847803 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAA-CGGAAAATTGTTTGTTGACA
**
847868 ACCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * ** * *
847909 CGAGTGGCACGATATCCTCCG-TCGTGGAGTTGAAA-TCGCGGATGAAACTGAAAAGTTGTTCGT
1 CGAGT--C-CAATATCCTCCGCT-GTGAAGTTGAAATTGGC-TCTGAAACGGAAAA-TTGTTTGT
*
847972 TGACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
60 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * * *
848018 CGGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGTTCTGAAATTGGGAAATTG-TTGTT
1 CGAGT--C-CAATATCCTCCGCT-GTGAAGTTGAAATTGGCTCTGAAA-CGGAAAATTGTTTGTT
* * *
848081 GGCAACCAGCCGTCCCTTTGTTGTGAAGTTTAACTTG
61 GACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
848118 ACTCTAGCTA
Statistics
Matches: 355, Mismatches: 46, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
100 83 0.23
101 3 0.01
102 3 0.01
103 2 0.01
104 5 0.01
105 2 0.01
106 88 0.25
108 48 0.14
109 116 0.33
110 5 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (105 bp):
CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAACGGAAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:848777 original size:67 final size:67
Alignment explanation
Indices: 848697--848855 Score: 232
Period size: 67 Copynumber: 2.4 Consensus size: 67
848687 GAAACGAAAT
* *
848697 TTTGTTTTAAGGGAGATA-AAT-TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCATGGGAGAC
1 TTTGTTTCAAGGGA-A-ACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
848760 AAAA
64 AAAA
* *
848764 TTTGTTTCGAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
1 TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
848829 AA
66 AA
**
848831 TTTGTTTCAAGGGAAATTATCTCAA
1 TTTGTTTCAAGGGAAACAATCTCAA
848856 GAGAGACGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 78 0.94
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (67 bp):
TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
AA
Found at i:848780 original size:36 final size:36
Alignment explanation
Indices: 848730--849205 Score: 212
Period size: 36 Copynumber: 13.9 Consensus size: 36
848720 AAAGATTTTG
* * *
848730 TGTTTCAAGAGAAACTGTCTCATGGGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATT
* * ***
848766 TGTTTCGAGGGAAACAATCTCAA---AG---GTTTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATT
* *
848796 GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATT
* * *
848833 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATT
* * * * *
848869 TATTTCAAGGGAAA-TGTTTTCAA---TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGGGAGACAAAATT
*
848897 ATGTTTC-AGGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGG-GAAACTATCTCAAGGGAGACAAAA-TT
*
848935 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATT
** * * * **
848971 CATTTCAATGGAAA-TGTTTC--------CAATGTTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAA-AATT
* * *
848999 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAA-TT
* *
849037 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATT
** * * * *
849073 CATTTCAAGGGAAA-TGTTTTCAA---TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGGGAGACAAAATT
*
849101 ATGTTTCAAGAGAAACTATCTCAAGGGAGA-AAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAA-TT
* * *
849138 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATT
* *
849174 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAA
849206 TGGTGAGCAC
Statistics
Matches: 325, Mismatches: 70, Indels: 90
0.67 0.14 0.19
Matches are distributed among these distances:
27 3 0.01
28 8 0.02
29 40 0.12
30 9 0.03
31 19 0.06
32 2 0.01
33 4 0.01
34 2 0.01
35 6 0.02
36 158 0.49
37 65 0.20
38 9 0.03
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATT
Found at i:848970 original size:102 final size:102
Alignment explanation
Indices: 848730--849187 Score: 659
Period size: 102 Copynumber: 4.5 Consensus size: 102
848720 AAAGATTTTG
* * * * * * *** * *
848730 TGTTTCAAGAGAAACTGTCTCATGGGAGACAAAATTTGTTTCGAGGGAAACAATCTCAAAGGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTC-AATG-TT
*
848795 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT
64 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
848833 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
*
848898 TGTTTCAGGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
848935 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAATGGAAATGTTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
*
849000 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
849037 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
*
849102 TGTTTCAAGAGAAACTATCTCAAGGGAGA-AAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
849138 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAA
849188 CTGTCTCAAG
Statistics
Matches: 323, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
101 88 0.27
102 190 0.59
103 45 0.14
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:850726 original size:20 final size:21
Alignment explanation
Indices: 850700--850761 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
850690 CTTTTTGTTC
*
850700 CCTTTTTTATTTTTGTTCTTT
1 CCTTTTTTATTCTTGTTCTTT
* *
850721 -CTTTTTTGTTCTTGTTTTTT
1 CCTTTTTTATTCTTGTTCTTT
*
850741 CCTTTTTTGCTTCTT-TTCTTT
1 CCTTTTTT-ATTCTTGTTCTTT
850762 TTTCTTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 12 0.35
22 5 0.15
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (21 bp):
CCTTTTTTATTCTTGTTCTTT
Found at i:850772 original size:22 final size:22
Alignment explanation
Indices: 850718--850770 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
850708 ATTTTTGTTC
850718 TTTCTTTTTTG-TTCTTGTTTT
1 TTTCTTTTTTGCTTCTTGTTTT
* *
850739 TTCCTTTTTTGCTTCTTTTCTTT
1 TTTCTTTTTTGCTTCTTGT-TTT
850762 TTTCTTTTT
1 TTTCTTTTT
850771 GCCCTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTGCTTCTTGTTTT
Found at i:853884 original size:21 final size:24
Alignment explanation
Indices: 853848--853907 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
853838 ATATATATAT
* *
853848 ATAATAAATATAATAACG-AAAA-A
1 ATAAT-AATGTAATAAAGTAAAATA
*
853871 A-AATAATTTAATAAAGTAAAATA
1 ATAATAATGTAATAAAGTAAAATA
853894 ATAATAATGTAATA
1 ATAATAATGTAATA
853908 TAATATAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 10 0.32
22 7 0.23
23 3 0.10
24 11 0.35
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (24 bp):
ATAATAATGTAATAAAGTAAAATA
Found at i:853900 original size:16 final size:16
Alignment explanation
Indices: 853879--853916 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
853869 AAAAATAATT
853879 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
853895 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
853911 T-ATAAA
1 TAATAAA
853917 CATGAAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:854665 original size:36 final size:37
Alignment explanation
Indices: 854619--854694 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
854609 GTTTAAAACA
854619 TAGCAAAATTCTATCCTA-TTTTTAGGAG-TTGAATCC
1 TAGCAAAATTCTATCCTATTTTTTA-GAGTTTGAATCC
* *
854655 TAGCAGAATTCTATCTTATTTTTTAGAGTTTGAATCC
1 TAGCAAAATTCTATCCTATTTTTTAGAGTTTGAATCC
854692 TAG
1 TAG
854695 TAGGACGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 19 0.53
37 17 0.47
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
TAGCAAAATTCTATCCTATTTTTTAGAGTTTGAATCC
Found at i:863403 original size:90 final size:89
Alignment explanation
Indices: 863289--863463 Score: 271
Period size: 90 Copynumber: 2.0 Consensus size: 89
863279 TCAAGAATAT
* *
863289 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTAAAATAA-TAAAATCTCTAATATGACTA
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATTAAAA-CCCTAATATGACTA
*
863353 TGGTAACTTGGATATAAAAGGATTA
65 AGGTAACTTGGATATAAAAGGATTA
* *
863378 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATTAAAACCCTAATATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTAAAATAATTAAAACCCTAATATGACTA
*
863443 AGGTAACTTGGCTATAAAAGG
65 AGGTAACTTGGATATAAAAGG
863464 GTGTGTTAGG
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
89 7 0.09
90 66 0.85
91 5 0.06
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATTAAAACCCTAATATGACTAA
GGTAACTTGGATATAAAAGGATTA
Found at i:870135 original size:90 final size:90
Alignment explanation
Indices: 870014--870191 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 90
870004 TAATCACGAA
* * * *
870014 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAC
1 TATTAAATTCCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
870079 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATAGAAAAGGAT
*
870104 TATTAAATTCCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
870169 TAGGGTAACTTGGATAGAAAAGG
66 TAGGGTAACTTGGATAGAAAAGG
870192 GTGTGTTAGA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATAGAAAAGGAT
Found at i:871323 original size:6 final size:6
Alignment explanation
Indices: 871312--871358 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
871302 GTGTCTATAC
* * * *
871312 CAATAT CAATAT -AGTAT CAATAA CAATAT CAATAC CAATAT TAATAT
1 CAATAT CAATAT CAATAT CAATAT CAATAT CAATAT CAATAT CAATAT
871359 ATCTTATATC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (6 bp):
CAATAT
Found at i:877167 original size:12 final size:12
Alignment explanation
Indices: 877124--877173 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
877114 CATAGCATTT
877124 TTATTTTACTTG
1 TTATTTTACTTG
877136 TTCATTTT--TTG
1 TT-ATTTTACTTG
877147 TATACTTTTACTTG
1 T-TA-TTTTACTTG
*
877161 TTATTTTCCTTG
1 TTATTTTACTTG
877173 T
1 T
877174 CTTTTTCAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
11 5 0.16
12 16 0.50
13 7 0.22
14 4 0.12
ACGTcount: A:0.14, C:0.12, G:0.08, T:0.66
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:884431 original size:17 final size:17
Alignment explanation
Indices: 884406--884445 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
884396 GTATGTTGTT
*
884406 CATTAAAGCATGCATTA
1 CATTTAAGCATGCATTA
* *
884423 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTA
884440 CATTTA
1 CATTTA
884446 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTA
Found at i:884544 original size:18 final size:18
Alignment explanation
Indices: 884501--884546 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
884491 ATTCATGCAT
884501 TTATTTCATTGAATAAAG
1 TTATTTCATTGAATAAAG
* * * *
884519 ATAGTTCATTGTATAATG
1 TTATTTCATTGAATAAAG
884537 TTATTTCATT
1 TTATTTCATT
884547 AATCAAACTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.50
Consensus pattern (18 bp):
TTATTTCATTGAATAAAG
Found at i:887327 original size:30 final size:31
Alignment explanation
Indices: 887293--887365 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
887283 TCTCAAAGGA
887293 CCTATCCATATGT-TCCGAAGAACATAGGT-T
1 CCTATCCATATGTCT-CGAAGAACATAGGTAT
*
887323 CCTATCCATATGTCTCGAAGGACATAGGTAAT
1 CCTATCCATATGTCTCGAAGAACATAGGT-AT
*
887355 CCTGTCCATAT
1 CCTATCCATAT
887366 ACCCCAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 26 0.68
31 1 0.03
32 11 0.29
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CCTATCCATATGTCTCGAAGAACATAGGTAT
Found at i:891629 original size:17 final size:16
Alignment explanation
Indices: 891590--891634 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
891580 AAGTACACAC
*
891590 ATAAATAAATATA-TA
1 ATAAGTAAATATATTA
891605 AT-AGTAAATATATTAA
1 ATAAGTAAATATATT-A
891621 ATAAGTAAATATAT
1 ATAAGTAAATATAT
891635 ATGCGCATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 9 0.35
15 3 0.12
16 3 0.12
17 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
ATAAGTAAATATATTA
Found at i:892299 original size:13 final size:13
Alignment explanation
Indices: 892278--892307 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
892268 ACTTTGTGAA
*
892278 TTGTGTCTCAAAG
1 TTGTCTCTCAAAG
892291 TTGTCTCTCAAAG
1 TTGTCTCTCAAAG
892304 TTGT
1 TTGT
892308 TTCTAAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (13 bp):
TTGTCTCTCAAAG
Found at i:895096 original size:3 final size:3
Alignment explanation
Indices: 895088--895136 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
895078 TTAATCCAAG
895088 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
895134 ATA
1 ATA
895137 TTATATAATC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:898658 original size:13 final size:13
Alignment explanation
Indices: 898640--898691 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
898630 GTCATAAATA
*
898640 TATGACGCGCATT
1 TATGACACGCATT
898653 TATGACACGCATT
1 TATGACACGCATT
*
898666 TATGACACACATT
1 TATGACACGCATT
*
898679 TATGACGCGCATT
1 TATGACACGCATT
898692 ACGCGTCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (13 bp):
TATGACACGCATT
Found at i:898826 original size:95 final size:96
Alignment explanation
Indices: 898650--898828 Score: 224
Period size: 95 Copynumber: 1.9 Consensus size: 96
898640 TATGACGCGC
** *
898650 ATTTATGACACGCATTTATGACACACATTTATGACGCGCATTACGCGTCATTGAAGCCATCGTCA
1 ATTTATGACACGCATTTATGA-ACACATTTACAACGCACATTACGCGTCATTGAAGCCATCGTCA
898715 TAAATGAAGATGACACACATTTATGTGTCATAA
65 TAAA-GAAGATGACACACATTTATGTGTCATAA
** * *
898748 ATTTATGACACGCATTTATG-ACA-ATTTACAACTTACATTGCGTGTCATTGAAGCACA-CGTCA
1 ATTTATGACACGCATTTATGAACACATTTACAACGCACATTACGCGTCATTGAAGC-CATCGTCA
898810 TTAAA-AA-ATGACACACATT
65 -TAAAGAAGATGACACACATT
898829 CGTGTGTCGT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
93 12 0.17
94 2 0.03
95 29 0.40
96 9 0.12
98 20 0.28
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (96 bp):
ATTTATGACACGCATTTATGAACACATTTACAACGCACATTACGCGTCATTGAAGCCATCGTCAT
AAAGAAGATGACACACATTTATGTGTCATAA
Found at i:902417 original size:90 final size:89
Alignment explanation
Indices: 902301--902467 Score: 307
Period size: 90 Copynumber: 1.9 Consensus size: 89
902291 TAATCCTGAA
* *
902301 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
902366 TAGGGTAACTTGGATATTAGATGAT
65 TAGGGTAACTTGGATATTAGATGAT
902391 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
902456 AGGGTAACTTGG
66 AGGGTAACTTGG
902468 CTATAAAAGG
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 25 0.33
90 50 0.67
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.40
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATTAGATGAT
Found at i:908968 original size:23 final size:23
Alignment explanation
Indices: 908935--909018 Score: 114
Period size: 23 Copynumber: 3.6 Consensus size: 23
908925 TTCGAGGGTT
*
908935 CTATGTGGTCCTTTGAGACAAAC
1 CTATGTGGTCCTTCGAGACAAAC
* * *
908958 CTTTGTGGTCCTTCGGGACAATC
1 CTATGTGGTCCTTCGAGACAAAC
*
908981 CTATGTGGTCCTTCGAGACAAAAA
1 CTATGTGGTCCTTCGAGAC-AAAC
909005 CTATGTGGTCCTTC
1 CTATGTGGTCCTTC
909019 AAGATAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 36 0.69
24 16 0.31
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (23 bp):
CTATGTGGTCCTTCGAGACAAAC
Found at i:914547 original size:21 final size:19
Alignment explanation
Indices: 914510--914560 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
914500 AAAATTATGA
*
914510 AATTATAAAAATTAGGGCCCT
1 AATTAT-AAATTTAGGG-CCT
*
914531 AATTATAAATTTAAGGGTCT
1 AATTATAAATTT-AGGGCCT
914551 AATTATAAAT
1 AATTATAAAT
914561 ACAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (19 bp):
AATTATAAATTTAGGGCCT
Found at i:915961 original size:29 final size:30
Alignment explanation
Indices: 915912--915968 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
915902 AATTATGCTT
915912 AACTACATTAAAGACCAG-AAAAGAAAATA
1 AACTACATTAAAGACCAGAAAAAGAAAATA
*
915941 AACTACATTAAAGGA-CGGAAAAAGAAAA
1 AACTACATTAAA-GACCAGAAAAAGAAAA
915969 ATAAGCTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.61, C:0.12, G:0.14, T:0.12
Consensus pattern (30 bp):
AACTACATTAAAGACCAGAAAAAGAAAATA
Found at i:925206 original size:22 final size:21
Alignment explanation
Indices: 925161--925206 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
925151 CGTTTAAAAA
* *
925161 TAATTTTATAAAGAAATAATT
1 TAATTTTAAAAAGAAACAATT
*
925182 TAATTTTAAAATATAAACAATT
1 TAATTTTAAAA-AGAAACAATT
925204 TAA
1 TAA
925207 ACTCAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAATTTTAAAAAGAAACAATT
Found at i:927019 original size:12 final size:12
Alignment explanation
Indices: 927004--927035 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
926994 AGAGAAGCTT
927004 GAAGATGAGGAA
1 GAAGATGAGGAA
*
927016 GAAGATGAGGAT
1 GAAGATGAGGAA
927028 GAAGATGA
1 GAAGATGA
927036 ATCTGGGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (12 bp):
GAAGATGAGGAA
Found at i:930356 original size:34 final size:33
Alignment explanation
Indices: 930317--930381 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
930307 TATTTTAAAA
*
930317 AATT-AAAAATTATTAGTATATTTTAAAATTTTTT
1 AATTAAAAAAGTA-TAGTATA-TTTAAAATTTTTT
*
930351 AATTAAAAAAGTATCGTATATTTAAAATTTT
1 AATTAAAAAAGTATAGTATATTTAAAATTTT
930382 CAAATCTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 11 0.39
34 10 0.36
35 7 0.25
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (33 bp):
AATTAAAAAAGTATAGTATATTTAAAATTTTTT
Found at i:944643 original size:3 final size:3
Alignment explanation
Indices: 944635--944660 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
944625 AATGAGGCAA
944635 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
944661 GGAATTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:952822 original size:2 final size:2
Alignment explanation
Indices: 952815--952868 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
952805 ATTTTTACAA
952815 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
952857 AT AT AT AT AT AT
1 AT AT AT AT AT AT
952869 TACAAGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:956317 original size:20 final size:20
Alignment explanation
Indices: 956292--956346 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
956282 GCAAAATAAA
956292 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTC-CCAG
** *
956312 AATCGCAAATCAATTCCCAG
1 AATCGCAACGCGATTCCCAG
956332 AATCGCAACGCGATT
1 AATCGCAACGCGATT
956347 ATGAAGAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.35, C:0.31, G:0.16, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGATTCCCAG
Found at i:956500 original size:20 final size:20
Alignment explanation
Indices: 956468--956706 Score: 203
Period size: 20 Copynumber: 11.8 Consensus size: 20
956458 CGCAATGAGT
*
956468 ATCCGTAAAATCGCAACGCGT
1 ATCCGT-AAATCGCAACGCGA
956489 ATCCGTAAATCGCAACGAC-A
1 ATCCGTAAATCGCAACG-CGA
** * *
956509 ATATGTAAAATAGCAACGCGT
1 ATCCGT-AAATCGCAACGCGA
956530 ATCCGTAAATCGCAACGAC-A
1 ATCCGTAAATCGCAACG-CGA
* * *
956550 ATACGTAAATCACAACGAGA
1 ATCCGTAAATCGCAACGCGA
* *
956570 ATACGTAAATCGCAACGCGT
1 ATCCGTAAATCGCAACGCGA
* * * *
956590 ATCTGTAAATTGCAATGAGA
1 ATCCGTAAATCGCAACGCGA
* * *
956610 ATACGTAAATCGCAATGCGT
1 ATCCGTAAATCGCAACGCGA
* *
956630 ATCCGTAAATTGCAATGCGA
1 ATCCGTAAATCGCAACGCGA
* * *
956650 ATACGTAAATCACAATGCGA
1 ATCCGTAAATCGCAACGCGA
* *
956670 ATACGTAAATCGCAATGCGA
1 ATCCGTAAATCGCAACGCGA
*
956690 ATCTGTAAATCGCAACG
1 ATCCGTAAATCGCAACG
956707 AAATTCTGAC
Statistics
Matches: 177, Mismatches: 36, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
20 155 0.88
21 22 0.12
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGCGA
Found at i:956714 original size:20 final size:19
Alignment explanation
Indices: 956395--956708 Score: 108
Period size: 20 Copynumber: 15.7 Consensus size: 19
956385 GATTTTCCAT
* * *
956395 AATCGCAACGCCAATATGAA
1 AATCGCAA-GCGAATCTGTA
*
956415 AATCGCAACGCGAA-CATATA
1 AATCGCAA-GCGAATC-TGTA
*
956435 AATCGCAATGCGATTCTG-A
1 AATCGCAA-GCGAATCTGTA
* * * *
956454 CTATCGCAATGAGTATCCGTAA
1 -AATCGCAA-GCGAATCTGT-A
* *
956476 AATCGCAACGCGTATCCGTA
1 AATCGCAA-GCGAATCTGTA
*
956496 AATCGCAA-CGACAATATGTAA
1 AATCGCAAGCG--AATCTGT-A
* * *
956517 AATAGCAACGCGTATCCGTA
1 AATCGCAA-GCGAATCTGTA
956537 AATCGCAA-CGACAATAC-GTA
1 AATCGCAAGCG--AAT-CTGTA
* *
956557 AATCACAACGAGAATAC-GTA
1 AATCGCAA-GCGAAT-CTGTA
*
956577 AATCGCAACGCGTATCTGTA
1 AATCGCAA-GCGAATCTGTA
* *
956597 AATTGCAATGAGAATAC-GTA
1 AATCGCAA-GCGAAT-CTGTA
* *
956617 AATCGCAATGCGTATCCGTA
1 AATCGCAA-GCGAATCTGTA
*
956637 AATTGCAATGCGAATAC-GTA
1 AATCGCAA-GCGAAT-CTGTA
*
956657 AATCACAATGCGAATAC-GTA
1 AATCGCAA-GCGAAT-CTGTA
956677 AATCGCAATGCGAATCTGTA
1 AATCGCAA-GCGAATCTGTA
956697 AATCGCAA-CGAA
1 AATCGCAAGCGAA
956709 ATTCTGACTA
Statistics
Matches: 233, Mismatches: 41, Indels: 42
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.03
19 4 0.02
20 185 0.79
21 32 0.14
22 2 0.01
23 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (19 bp):
AATCGCAAGCGAATCTGTA
Found at i:957598 original size:24 final size:24
Alignment explanation
Indices: 957566--957619 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
957556 GTATTCGAAA
957566 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
957590 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
957614 TTTGAT
1 TTTGAT
957620 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:960052 original size:20 final size:20
Alignment explanation
Indices: 960027--960079 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
960017 AGACATTCAT
*
960027 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAAAGCGGAA
*
960047 TTGACTATCGCAAAGTGGAA
1 TTGACTATCGCAAAGCGGAA
*
960067 ATGACTATCGCAA
1 TTGACTATCGCAA
960080 CGAGAGAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (20 bp):
TTGACTATCGCAAAGCGGAA
Found at i:960141 original size:34 final size:33
Alignment explanation
Indices: 960064--960262 Score: 149
Period size: 33 Copynumber: 5.8 Consensus size: 33
960054 TCGCAAAGTG
**
960064 GAAATGACTATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
* * *
960097 GAAATGAAAATCGCAATGAGTGAATTGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
960130 GAAAATGAAAATCGCAACACGAAATGAAAATCGCAA--C
1 G-AAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGC
* *
960167 G-AGTG--AATCGCAATGCGAAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAA--CG---A-GAGAATCGCAATGC
*
960203 GAAATGAAAATCGCAACGAGTGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
960236 GAAAATGAAAATCGCAACGCGA-AATCG
1 G-AAATGAAAATCGCAACGAGAGAATCG
960263 TTGCGATTTT
Statistics
Matches: 136, Mismatches: 15, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
31 1 0.01
32 1 0.01
33 55 0.40
34 47 0.35
35 4 0.03
36 4 0.03
37 7 0.05
38 1 0.01
39 16 0.12
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:960143 original size:53 final size:53
Alignment explanation
Indices: 960086--960260 Score: 305
Period size: 53 Copynumber: 3.3 Consensus size: 53
960076 GCAACGAGAG
* * *
960086 AATCGCAATGCGAAATGAAAATCGCAATGAGTGAATTGCAATGCGAAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAA
*
960139 AATCGCAACACGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAA
*
960192 AATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAA
960245 AATCGCAACGCGAAAT
1 AATCGCAACGCGAAAT
960261 CGTTGCGATT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 115 1.00
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (53 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAA
Found at i:960152 original size:20 final size:19
Alignment explanation
Indices: 960086--960260 Score: 155
Period size: 19 Copynumber: 9.8 Consensus size: 19
960076 GCAACGAGAG
960086 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
960105 AATCGCAAT--G-AGTG--
1 AATCGCAATGCGAAATGAA
*
960119 AATTGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
**
960139 AATCGCAACACGAAATGAA
1 AATCGCAATGCGAAATGAA
*
960158 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
960172 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
960192 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
960211 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
960225 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
960245 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
960261 CGTTGCGATT
Statistics
Matches: 127, Mismatches: 11, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
14 24 0.19
16 14 0.11
17 5 0.04
18 9 0.07
19 43 0.34
20 32 0.25
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:960290 original size:19 final size:19
Alignment explanation
Indices: 960263--960384 Score: 208
Period size: 19 Copynumber: 6.4 Consensus size: 19
960253 CGCGAAATCG
960263 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
960282 TTACGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
960301 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
960320 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
960339 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
960358 TTGCGATTTTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
960378 TTGCGAT
1 TTGCGAT
960385 AGTCTGTTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
19 87 0.90
20 10 0.10
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:960505 original size:14 final size:14
Alignment explanation
Indices: 960486--960522 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
960476 CATCAATTAA
960486 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
960500 ACAAATCATCTTTT
1 ACAAATCAACATTT
960514 ACAAATCAA
1 ACAAATCAA
960523 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:964024 original size:19 final size:19
Alignment explanation
Indices: 963938--964078 Score: 122
Period size: 19 Copynumber: 7.8 Consensus size: 19
963928 TCTTTTGGTT
*
963938 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
963957 GAGAATGAAAATTGCAACGC
1 GA-AATGAAAATCGCAACGC
**
963977 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
963995 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
964011 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
**
964028 G--A-GGGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
964044 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
964063 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
964079 TGCGTTTTGG
Statistics
Matches: 96, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
14 18 0.19
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 38 0.40
20 26 0.27
21 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:964024 original size:33 final size:33
Alignment explanation
Indices: 963938--964061 Score: 140
Period size: 33 Copynumber: 3.5 Consensus size: 33
963928 TCTTTTGGTT
*
963938 GAAATGAAAATCGCAACGAGAGAATGAAAATTGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
**
963977 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
964011 GAAATGAAAATCGCAACGAGGGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
964044 GAAATTAAAATCGCAACG
1 GAAATGAAAATCGCAACG
964062 CGAAATGAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
33 47 0.61
34 10 0.13
36 1 0.01
37 1 0.01
38 3 0.04
40 15 0.19
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:964197 original size:20 final size:19
Alignment explanation
Indices: 964128--964199 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
964118 CGATTCCCTC
964128 GTTGCGATTTTCATTTCTCT
1 GTTGCGATTTTCATTT-TCT
** *
964148 CGTTGCGATAGTCAATTTCGT
1 -GTTGCGATTTTCATTTTC-T
964169 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTC-T
964189 GTTGCGATTTT
1 GTTGCGATTTT
964200 AAGTTTAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 29 0.67
21 14 0.33
ACGTcount: A:0.14, C:0.17, G:0.19, T:0.50
Consensus pattern (19 bp):
GTTGCGATTTTCATTTTCT
Found at i:964797 original size:20 final size:20
Alignment explanation
Indices: 964760--965035 Score: 227
Period size: 20 Copynumber: 13.7 Consensus size: 20
964750 GCTTTAAAAA
964760 TCGCGTTGCGATTTTACGTAT
1 TCGCGTTGCGA-TTTACGTAT
* *
964781 TCGCATTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGTAT
* *
964801 ACGCATTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
*
964821 TCTCGTTGCGATTTACAG-AT
1 TCGCGTTGCGATTTAC-GTAT
*
964841 ACGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGTAT
* *
964861 TCTCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGTAT
*
964881 ACGCGTTGCGATTTTACGTAT
1 TCGCGTTGCGA-TTTACGTAT
*
964902 T-GTCGTTGCGATTTACGGAT
1 TCG-CGTTGCGATTTACGTAT
* * *
964922 ACTCGTTGCGATTTTACGGAT
1 TCGCGTTGCGA-TTTACGTAT
* * * * *
964943 ACTCGTTGCAATAGT-CAG-AA
1 TCGCGTTGCGAT-TTAC-GTAT
* ** *
964963 TCGTGTTGCGATTTATATGT
1 TCGCGTTGCGATTTACGTAT
* *
964983 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGTAT
* *
965003 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGTAT
965023 TCGCGTTGCGATT
1 TCGCGTTGCGATT
965036 ATGGAAAATC
Statistics
Matches: 210, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.01
20 160 0.76
21 48 0.23
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTACGTAT
Found at i:964821 original size:40 final size:40
Alignment explanation
Indices: 964761--965035 Score: 277
Period size: 40 Copynumber: 6.8 Consensus size: 40
964751 CTTTAAAAAT
*
964761 CGCGTTGCGATTTTACGTATTCGCATTGCGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATTCGCGTTGCGATTTACGGATA
* * *
964802 CGCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATA
*
964842 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATA
964882 CGCGTTGCGATTTTACGTATT-GTCGTTGCGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATTCG-CGTTGCGATTTACGGATA
* * * * * * *
964923 CTCGTTGCGATTTTACGGATACTCGTTGCAATAGT-CAGA-A
1 CGCGTTGCGA-TTTACGTATTCGCGTTGCGAT-TTACGGATA
* ** * * ** *
964963 TCGTGTTGCGATTTATATGTTCGCGTTGCGATTTTCATATT
1 -CGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATA
* *
965004 CGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGCGTTGCGATTTACGTATTCGCGTTGCGATT
965036 ATGGAAAATC
Statistics
Matches: 197, Mismatches: 30, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 121 0.61
41 74 0.38
42 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (40 bp):
CGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGGATA
Found at i:964909 original size:41 final size:41
Alignment explanation
Indices: 964761--964951 Score: 296
Period size: 40 Copynumber: 4.7 Consensus size: 41
964751 CTTTAAAAAT
* *
964761 CGCGTTGCGATTTTACGTATTCGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* *
964802 CGCATTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
964842 CGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
*
964882 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* * *
964923 CTCGTTGCGATTTTACGGATACTCGTTGC
1 CGCGTTGCGATTTTACGTATTCTCGTTGC
964952 AATAGTCAGA
Statistics
Matches: 138, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 75 0.54
41 63 0.46
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (41 bp):
CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
Found at i:965096 original size:42 final size:41
Alignment explanation
Indices: 964758--965096 Score: 111
Period size: 40 Copynumber: 8.3 Consensus size: 41
964748 GCGCTTTAAA
* * *
964758 AATCGCGTTGCG-ATTTTACGTATTCGCATTGCGATTTACGGAT
1 AATCGCGTTGCGAATTTT-CATATTCGCGTTGCGATTTTC--AT
* * * * *
964801 -A-CGCATTGCG-ATTTACGTATTCTCGTTGCGATTTACA-
1 AATCGCGTTGCGAATTTTCATATTCGCGTTGCGATTTTCAT
* * * * *
964838 GATACGCGTTGCG-ATTTACGTATTCTCGTTGCGATTTACGGAT
1 AAT-CGCGTTGCGAATTTTCATATTCGCGTTGCGATTTTC--AT
* *
964881 -A-CGCGTTGCG-ATTTTACGTATT-GTCGTTGCGATTTACGGAT
1 AATCGCGTTGCGAATTTT-CATATTCG-CGTTGCGATTTTC--AT
* ** * * * ** *
964922 -A-CTCGTTGCG-ATTTTACGGATACTCGTTGCAATAGTCAG
1 AATCGCGTTGCGAATTTT-CATATTCGCGTTGCGATTTTCAT
* *
964961 AATCGTGTTGCG-ATTTAT-ATGTTCGCGTTGCGATTTTCAT
1 AATCGCGTTGCGAATTT-TCATATTCGCGTTGCGATTTTCAT
* ** *
965001 ATTCGCGTTGCG-ATTTTCATATTCGCGTTGCGATTATGGAA
1 AATCGCGTTGCGAATTTTCATATTCGCGTTGCGATT-TTCAT
** *
965042 AATCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCAT
1 AATCGCGTTGCGAATTT-TCA-TATTCGCGTTGCGATT-TTCAT
965084 AATCGCGTTGCGA
1 AATCGCGTTGCGA
965097 TTATAGGAAC
Statistics
Matches: 236, Mismatches: 43, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 110 0.47
41 85 0.36
42 34 0.14
43 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (41 bp):
AATCGCGTTGCGAATTTTCATATTCGCGTTGCGATTTTCAT
Done.