Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 209 of 210
Found at i:62103562 original size:2 final size:2
Alignment explanation
Indices: 62103557--62103590 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
62103547 TGTTTAAGTA
* *
62103557 TG TG TG TT TG TA TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
62103591 GCCCCCATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.44, T:0.53
Consensus pattern (2 bp):
TG
Found at i:62104961 original size:28 final size:28
Alignment explanation
Indices: 62104929--62104985 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
62104919 CAAATCACTG
62104929 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTGATTTCAAATGATTTTTTA
62104957 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTGATTTCAAATGATTTTTTA
62104985 G
1 G
62104986 AATCTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (28 bp):
GTAACTTCTGATTTCAAATGATTTTTTA
Found at i:62105001 original size:27 final size:28
Alignment explanation
Indices: 62104929--62105002 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 28
62104919 CAAATCACTG
* **
62104929 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTAATGCCAAATGATTTTTTA
* **
62104957 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTAATGCCAAATGATTTTTTA
62104985 G-AATCTT-TAATGCCAAAT
1 GTAA-CTTCTAATGCCAAAT
62105003 TTCCTCACGA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 10 0.24
28 32 0.76
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (28 bp):
GTAACTTCTAATGCCAAATGATTTTTTA
Found at i:62109600 original size:29 final size:29
Alignment explanation
Indices: 62109567--62109625 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
62109557 TTCTGGGACG
62109567 AGGTTCCCAAAGTTTCAGCCTTTAAAAAA
1 AGGTTCCCAAAGTTTCAGCCTTTAAAAAA
62109596 AGGTTCCCAAAGTTTCAGCCTTTAAAAAA
1 AGGTTCCCAAAGTTTCAGCCTTTAAAAAA
62109625 A
1 A
62109626 CCTTGGCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (29 bp):
AGGTTCCCAAAGTTTCAGCCTTTAAAAAA
Found at i:62110596 original size:62 final size:62
Alignment explanation
Indices: 62110514--62110656 Score: 270
Period size: 62 Copynumber: 2.3 Consensus size: 62
62110504 CTGATTTTGT
*
62110514 ATTGATAT-TGTATTGTTGTTGGAAAAAAAATATTGGGTTTTACCGATTGAGTCTTAGTTTA
1 ATTGATATAAGTATTGTTGTTGGAAAAAAAATATTGGGTTTTACCGATTGAGTCTTAGTTTA
62110575 ATTGATATAAGTATTGTTGTTGGAAAAAAAATATTGGGTTTTACCGATTGAGTCTTAGTTTA
1 ATTGATATAAGTATTGTTGTTGGAAAAAAAATATTGGGTTTTACCGATTGAGTCTTAGTTTA
62110637 ATTGATATAAGTATTGTTGT
1 ATTGATATAAGTATTGTTGT
62110657 CAATACAAGT
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
61 8 0.10
62 72 0.90
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (62 bp):
ATTGATATAAGTATTGTTGTTGGAAAAAAAATATTGGGTTTTACCGATTGAGTCTTAGTTTA
Found at i:62112822 original size:28 final size:28
Alignment explanation
Indices: 62112781--62112838 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
62112771 AGAAGAGGAG
*
62112781 AAAATACTTTTGAAAAGT-ATTGTTAAAA
1 AAAATACTTATGAAAAGTGATT-TTAAAA
*
62112809 AAAATGCTTATGAAAAGTGATTTTAAAA
1 AAAATACTTATGAAAAGTGATTTTAAAA
62112837 AA
1 AA
62112839 TTTGATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (28 bp):
AAAATACTTATGAAAAGTGATTTTAAAA
Found at i:62114046 original size:36 final size:36
Alignment explanation
Indices: 62114006--62114111 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 36
62113996 TTGACAATAC
62114006 AAAATGGAAGAAGTGTAAATCATTCATTGGTGATAT
1 AAAATGGAAGAAGTGTAAATCATTCATTGGTGATAT
* * * * * **
62114042 AAAATGTAAGAAGTGTAGATCGTCCGTTGACGATAT
1 AAAATGGAAGAAGTGTAAATCATTCATTGGTGATAT
* * *
62114078 AAAATGGAAAAAGTGTAAACCATTAATTGGTGAT
1 AAAATGGAAGAAGTGTAAATCATTCATTGGTGAT
62114112 GTGAAATGTA
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.28
Consensus pattern (36 bp):
AAAATGGAAGAAGTGTAAATCATTCATTGGTGATAT
Found at i:62114119 original size:72 final size:72
Alignment explanation
Indices: 62113959--62114123 Score: 222
Period size: 72 Copynumber: 2.3 Consensus size: 72
62113949 AAAACTGTTC
* * * * *
62113959 ATTGATGATATAAAATGCAAGAAGTATAGATTGTCTGTTGACAATACAAAATGGAAGAAGTGTAA
1 ATTGGTGATATAAAATGTAAGAAGTATAGATCGTCCGTTGACAATACAAAATGGAAAAAGTGTAA
* *
62114024 ATCATTC
66 ACCATTA
* * *
62114031 ATTGGTGATATAAAATGTAAGAAGTGTAGATCGTCCGTTGACGATATAAAATGGAAAAAGTGTAA
1 ATTGGTGATATAAAATGTAAGAAGTATAGATCGTCCGTTGACAATACAAAATGGAAAAAGTGTAA
62114096 ACCATTA
66 ACCATTA
* *
62114103 ATTGGTGATGTGAAATGTAAG
1 ATTGGTGATATAAAATGTAAG
62114124 CAATGCATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 81 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (72 bp):
ATTGGTGATATAAAATGTAAGAAGTATAGATCGTCCGTTGACAATACAAAATGGAAAAAGTGTAA
ACCATTA
Found at i:62118208 original size:82 final size:81
Alignment explanation
Indices: 62117984--62118242 Score: 272
Period size: 81 Copynumber: 3.2 Consensus size: 81
62117974 TATAAGTCAA
* * * * * *
62117984 GGGATATAACCA-CTCGCAGGAACCCCTCGTGGGCTCCCTTTGTCTCACAATATTCATTATACAA
1 GGGATATAACCATC-CGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATAC-A
*
62118048 ATATACAAACGTGCAAAG
64 ATATACAAACATGCAAAG
* * * * * * * *
62118066 GGG-TCTAACCACCCACGAGAACCCTTCACGGGCTCTTTTTATCCCACAATATCCATTATACGAA
1 GGGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATAC-AA
62118130 TATACAAACATGCAAAG
65 TATACAAACATGCAAAG
* * * *
62118147 GGGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTCTCTAACAATGTACAATATACAGA
1 GGGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATACA-A
*
62118212 TCTACAAACATGCAAAG
65 TATACAAACATGCAAAG
*
62118229 AGGA-ATAACCATCC
1 GGGATATAACCATCC
62118243 TTTTTGAGAT
Statistics
Matches: 146, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
81 76 0.52
82 70 0.48
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (81 bp):
GGGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATACAAT
ATACAAACATGCAAAG
Found at i:62121497 original size:62 final size:61
Alignment explanation
Indices: 62121421--62121544 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 61
62121411 GAACTGTGCA
62121421 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGGAAGAGGCAATCGGTCGACT
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAAT-GGGGAAGAGGCAATCGGTCGACT
62121483 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
62121544 A
1 A
62121545 CTGAAGCAGT
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 24 0.39
62 38 0.61
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (61 bp):
AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
Found at i:62122357 original size:12 final size:12
Alignment explanation
Indices: 62122340--62122368 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
62122330 AGTAACAGAT
62122340 TTTAATATAAAA
1 TTTAATATAAAA
62122352 TTTAATATAAAA
1 TTTAATATAAAA
62122364 TTTAA
1 TTTAA
62122369 ACTCTCATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAATATAAAA
Found at i:62123922 original size:128 final size:121
Alignment explanation
Indices: 62123647--62123932 Score: 421
Period size: 121 Copynumber: 2.3 Consensus size: 121
62123637 TTGTTTTCAT
* * *
62123647 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAATTACTGCTTAAAGGTTGGATTATGGTATATC
1 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
* *
62123712 GATGTTTAGTGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATTGTAAGAA
66 AATGTTTAGTGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAA
62123768 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
1 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
*
62123833 AATGTTTAGTGTAGTCGGGGCGTTGGGCATTCAATAGCTTAGTT-ATTGACATCATAGTAAGAA
66 AATGTTTAGTGTAGT-----C---GGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAA
* *
62123896 TGATTTCAAATGCATTGGATAAGGTTCAAGCTAGTTA
1 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTA
62123933 TATAGCTCGA
Statistics
Matches: 149, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
121 76 0.51
126 1 0.01
128 53 0.36
129 19 0.13
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (121 bp):
TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
AATGTTTAGTGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAA
Found at i:62124081 original size:147 final size:147
Alignment explanation
Indices: 62123857--62124196 Score: 511
Period size: 147 Copynumber: 2.3 Consensus size: 147
62123847 TCGGGGCGTT
*
62123857 GGGCATTCAATAGCTTAGTT-ATTGACATCATAGTAAGAATGATTTCAAATGCATTGGATAAGGT
1 GGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAAGGT
* * * * *
62123921 TCAAGCTAGTTATATAGCTCGACTTATAGCTGTCCGTGCTGCTTAAAGATTGGATTATGGTATAT
66 TCAAGCTAGTTATATAGCTCGACCTATAGCTGTCCGTACTGCCTAAAGAGTGGATCATGGTATAT
62123986 TGATGTTTAGCTTAGTC
131 TGATGTTTAGCTTAGTC
* * *
62124003 GGGCACTCAATAGCTTAGTTCATTGACATCATAGTAAGATTCATTTCAAATGCATTGGCTAAGGT
1 GGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAAGGT
* * * *
62124068 TCAAGCTAGTTATATAGCTTGACCTGTAGCTGTCCTTACTGCCTATAGAGTGGATCATGGTATAT
66 TCAAGCTAGTTATATAGCTCGACCTATAGCTGTCCGTACTGCCTAAAGAGTGGATCATGGTATAT
*
62124133 TGATGTTTAGCTTGGTC
131 TGATGTTTAGCTTAGTC
* * * *
62124150 GGGCGTTCAATACCTTAGATCATTGACATCATGGTAAGAATCATTTC
1 GGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTC
62124197 TTGACCTGTA
Statistics
Matches: 173, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
146 19 0.11
147 154 0.89
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (147 bp):
GGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAAGGT
TCAAGCTAGTTATATAGCTCGACCTATAGCTGTCCGTACTGCCTAAAGAGTGGATCATGGTATAT
TGATGTTTAGCTTAGTC
Found at i:62125797 original size:16 final size:18
Alignment explanation
Indices: 62125773--62125812 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
62125763 ATAAATTTTC
*
62125773 TTTAATTTTTT-AAAT-A
1 TTTATTTTTTTAAAATAA
62125789 TTTATTTTTTTAAAATAA
1 TTTATTTTTTTAAAATAA
62125807 TTTATT
1 TTTATT
62125813 AATTGATCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTTTTTTAAAATAA
Found at i:62126215 original size:18 final size:19
Alignment explanation
Indices: 62126181--62126218 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62126171 AATTACAAAA
62126181 AAAAATTTAAAATATTTAT
1 AAAAATTTAAAATATTTAT
*
62126200 AAAAATTTCAAA-ATTTAT
1 AAAAATTTAAAATATTTAT
62126218 A
1 A
62126219 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTTAAAATATTTAT
Found at i:62128419 original size:42 final size:42
Alignment explanation
Indices: 62128359--62128439 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
62128349 TGTGTATAGT
*
62128359 AGGACCCATTTGAAAGAAAAGCTAGCCGTTGAAGAGGAGAGA
1 AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAGAGA
* * *
62128401 AGGACCCATTTGATAGAAAAGGTAGCCGTTAAAGGGGAG
1 AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAG
62128440 CGGCCACAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.16
Consensus pattern (42 bp):
AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAGAGA
Found at i:62129176 original size:21 final size:23
Alignment explanation
Indices: 62129152--62129193 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
62129142 ACAAGCTTAC
62129152 AGGTTC-TGTCCCT-GCTTCATT
1 AGGTTCATGTCCCTCGCTTCATT
*
62129173 AGGTTCATGTCCTTCGCTTCA
1 AGGTTCATGTCCCTCGCTTCA
62129194 AACACTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.40
Consensus pattern (23 bp):
AGGTTCATGTCCCTCGCTTCATT
Found at i:62133086 original size:31 final size:32
Alignment explanation
Indices: 62133048--62133109 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
62133038 GGCCCATTTT
62133048 TATTTTAAAAAT-TTTAAAAAATTAA-AAAAAG
1 TATTTTAAAAATATTT-AAAAATTAACAAAAAG
*
62133079 TATTTTAAAAATATTTTAAAATTAACAAAAA
1 TATTTTAAAAATATTTAAAAATTAACAAAAA
62133110 TTTAAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAATTAACAAAAAG
Found at i:62133088 original size:11 final size:11
Alignment explanation
Indices: 62133074--62133139 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
62133064 AAAAATTAAA
62133074 AAAAGTATTTT
1 AAAAGTATTTT
*
62133085 AAAAATATTTT
1 AAAAGTATTTT
***
62133096 AAAA-T-TAAC
1 AAAAGTATTTT
*
62133105 AAAA--ATTTA
1 AAAAGTATTTT
62133114 AAAAGTATTTT
1 AAAAGTATTTT
*
62133125 AAAAGGATTTT
1 AAAAGTATTTT
62133136 AAAA
1 AAAA
62133140 TTAAAAAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
9 10 0.23
10 1 0.02
11 32 0.74
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:62133128 original size:40 final size:40
Alignment explanation
Indices: 62133048--62133227 Score: 240
Period size: 39 Copynumber: 4.5 Consensus size: 40
62133038 GGCCCATTTT
*
62133048 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAA
* *
62133090 TATTTTAAAATTAACAAAAATT-TAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAA-AAAAATTAAAAAAAGTATTTTAAAAA
* *
62133130 GATTTTAAAATT-AAAAAATTAAAAAAAGTATTTTTAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
* * *
62133169 TATTTTAAAATTAAAAAAATT-TAAAAAGTATGTAAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
62133208 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
62133228 AAATATATTT
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
38 7 0.06
39 61 0.50
40 38 0.31
41 11 0.09
42 6 0.05
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:62133149 original size:79 final size:78
Alignment explanation
Indices: 62133061--62133230 Score: 277
Period size: 78 Copynumber: 2.2 Consensus size: 78
62133051 TTTAAAAATT
* *
62133061 TTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAACAAAAATTTAAAAAGTATTTTA
1 TTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA-AAAAATTTAAAAAGTATGTAA
*
62133126 AAAGGATTTTAAAA
65 AAAAGATTTTAAAA
*
62133140 TTAAAAAATTAAAAAAAGTATTTTTAAAATATTTTAAAATTAAAAAAATTTAAAAAGTATGTAAA
1 TTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAGTATGTAAA
*
62133205 AAATATTTTAAAA
66 AAAGATTTTAAAA
*
62133218 TTAAAAAAATAAA
1 TTAAAAAATTAAA
62133231 TATATTTATT
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
78 43 0.51
79 42 0.49
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (78 bp):
TTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAGTATGTAAA
AAAGATTTTAAAA
Found at i:62137552 original size:18 final size:18
Alignment explanation
Indices: 62137513--62137571 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
62137503 ATAAGTATAT
**
62137513 ATTTTTAATTTTTTAAT-
1 ATTTTTAATTTTAAAATA
*
62137530 TTTTTTAATTTTAAAATA
1 ATTTTTAATTTTAAAATA
62137548 ATTTTT-ATTTTAAAATAA
1 ATTTTTAATTTTAAAAT-A
62137566 ATTTTT
1 ATTTTT
62137572 GGTGTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 24 0.67
18 12 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTAATTTTAAAATA
Found at i:62154235 original size:29 final size:29
Alignment explanation
Indices: 62154203--62154273 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
62154193 TTTTGAAAAT
*
62154203 TAAGAATTTAGTCCATATATTTGTATTTC
1 TAAGAATTTAGTCCATATATGTGTATTTC
* *
62154232 TAAGAATTTAGTCCCTGTATGTGTATTTC
1 TAAGAATTTAGTCCATATATGTGTATTTC
*
62154261 TAGGAATTTAGTC
1 TAAGAATTTAGTC
62154274 TCTCTACTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (29 bp):
TAAGAATTTAGTCCATATATGTGTATTTC
Found at i:62155415 original size:12 final size:12
Alignment explanation
Indices: 62155398--62155422 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62155388 AATTCTAGGC
62155398 ATTGTATCAAAA
1 ATTGTATCAAAA
62155410 ATTGTATCAAAA
1 ATTGTATCAAAA
62155422 A
1 A
62155423 GAATAGGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTGTATCAAAA
Found at i:62157501 original size:17 final size:18
Alignment explanation
Indices: 62157474--62157509 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
62157464 GATTATAATA
62157474 AAAAGTTATAAAATTTTT
1 AAAAGTTATAAAATTTTT
*
62157492 AAAA-TTATAAATTTTTT
1 AAAAGTTATAAAATTTTT
62157509 A
1 A
62157510 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAAAGTTATAAAATTTTT
Found at i:62157640 original size:20 final size:21
Alignment explanation
Indices: 62157605--62157643 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62157595 TTTTTCATAA
*
62157605 ATTTTTTTCATAAATTTTTTT
1 ATTTTTTTAATAAATTTTTTT
62157626 ATTTTTTTAAT-AATTTTT
1 ATTTTTTTAATAAATTTTT
62157644 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTTTTAATAAATTTTTTT
Found at i:62157641 original size:12 final size:11
Alignment explanation
Indices: 62157585--62157643 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 11
62157575 AAAAGTATAA
62157585 TTTTATAATTT
1 TTTTATAATTT
62157596 TTTTCATAAATTT
1 TTTT-AT-AATTT
62157609 TTTTCATAAATTT
1 TTTT-AT-AATTT
62157622 TTTTAT--TTT
1 TTTTATAATTT
*
62157631 TTTAATAATTT
1 TTTTATAATTT
62157642 TT
1 TT
62157644 AAATTTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
9 8 0.19
11 9 0.21
12 4 0.09
13 22 0.51
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:62157643 original size:13 final size:13
Alignment explanation
Indices: 62157591--62157625 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
62157581 ATAATTTTAT
62157591 AATTTTTTTCATA
1 AATTTTTTTCATA
62157604 AATTTTTTTCATA
1 AATTTTTTTCATA
62157617 AATTTTTTT
1 AATTTTTTT
62157626 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (13 bp):
AATTTTTTTCATA
Found at i:62157649 original size:20 final size:21
Alignment explanation
Indices: 62157602--62157650 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
62157592 ATTTTTTTCA
*
62157602 TAAATTTTTTTCATAAATTTT
1 TAAATTTTTTTAATAAATTTT
**
62157623 TTTATTTTTTTAAT-AATTTT
1 TAAATTTTTTTAATAAATTTT
62157643 TAAATTTT
1 TAAATTTT
62157651 AAAAGGGCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TAAATTTTTTTAATAAATTTT
Found at i:62158037 original size:2 final size:2
Alignment explanation
Indices: 62158030--62158064 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
62158020 TTAGATATTC
62158030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62158065 CACCCACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62159245 original size:21 final size:21
Alignment explanation
Indices: 62159211--62159256 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
62159201 CTAAGATGTG
*
62159211 AATTGGATTGAATTGA-GTATA
1 AATTGGATTAAATTGATGT-TA
*
62159232 AATTGTATTAAATTGATGTTA
1 AATTGGATTAAATTGATGTTA
62159253 AATT
1 AATT
62159257 CATTCGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.43
Consensus pattern (21 bp):
AATTGGATTAAATTGATGTTA
Found at i:62159741 original size:26 final size:27
Alignment explanation
Indices: 62159697--62159747 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
62159687 AGAGTGTTCC
*
62159697 ATTAAATGGCTCTTCGTGAGCTTCCTG
1 ATTAAATGCCTCTTCGTGAGCTTCCTG
*
62159724 ATTAAA-GCCTCTTTGTGAGCTTCC
1 ATTAAATGCCTCTTCGTGAGCTTCC
62159748 CGATATGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (27 bp):
ATTAAATGCCTCTTCGTGAGCTTCCTG
Found at i:62159853 original size:24 final size:24
Alignment explanation
Indices: 62159826--62159871 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
62159816 TACCCGTTAT
62159826 TGGCTCGCATGAGCTTCCTGATTA
1 TGGCTCGCATGAGCTTCCTGATTA
** *
62159850 TGGCTCTTATGAGCTTTCTGAT
1 TGGCTCGCATGAGCTTCCTGAT
62159872 ATACAACCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (24 bp):
TGGCTCGCATGAGCTTCCTGATTA
Found at i:62160693 original size:19 final size:19
Alignment explanation
Indices: 62160669--62160717 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
62160659 TGATTTTGGT
*
62160669 TTGGTTTGAATGTCTTGTA
1 TTGGTTTGAAAGTCTTGTA
62160688 TTGGTTTGAAAGTCTTGTA
1 TTGGTTTGAAAGTCTTGTA
62160707 TTGGTTTGAAA
1 TTGGTTTGAAA
62160718 ATATGTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (19 bp):
TTGGTTTGAAAGTCTTGTA
Found at i:62172793 original size:29 final size:30
Alignment explanation
Indices: 62172752--62172809 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
62172742 TTGTTTGTGG
*
62172752 AAATTGAATC-AAATTAAAATTTTATGTATA
1 AAATTGAATCAAAATCAAAA-TTTATGTATA
*
62172782 AAATTGTA-CAAAATCAAAATTTATGTAT
1 AAATTGAATCAAAATCAAAATTTATGTAT
62172810 GATATTGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (30 bp):
AAATTGAATCAAAATCAAAATTTATGTATA
Found at i:62172816 original size:29 final size:30
Alignment explanation
Indices: 62172762--62172839 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 30
62172752 AAATTGAATC
* *
62172762 AAATTAAAATTTTATGTATAAAATTGTACA-
1 AAATCAAAA-TTTATGTATAAAATTGCACAT
* *
62172792 AAATCAAAATTTATGTATGATATTGCACATT
1 AAATCAAAATTTATGTATAAAATTGCACA-T
* *
62172823 AAATCAAAGTTCATGTA
1 AAATCAAAATTTATGTA
62172840 CAATTTTGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 17 0.43
30 8 0.20
31 15 0.38
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (30 bp):
AAATCAAAATTTATGTATAAAATTGCACAT
Found at i:62176612 original size:10 final size:10
Alignment explanation
Indices: 62176597--62176638 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
62176587 ATCATGCTAG
*
62176597 TTTTTTGCAT
1 TTTTTTGAAT
62176607 TTTTTTGAAT
1 TTTTTTGAAT
62176617 TTTTTAT-AA-
1 TTTTT-TGAAT
62176626 TTTTTTGAAT
1 TTTTTTGAAT
62176636 TTT
1 TTT
62176639 GAATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
8 1 0.04
9 7 0.25
10 19 0.68
11 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTTTTGAAT
Found at i:62176621 original size:19 final size:19
Alignment explanation
Indices: 62176597--62176638 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
62176587 ATCATGCTAG
* *
62176597 TTTTTTGCATTTTTTTGAA
1 TTTTTTACAATTTTTTGAA
*
62176616 TTTTTTATAATTTTTTGAA
1 TTTTTTACAATTTTTTGAA
62176635 TTTT
1 TTTT
62176639 GAATTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTTACAATTTTTTGAA
Found at i:62182367 original size:22 final size:22
Alignment explanation
Indices: 62182324--62182368 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
62182314 CAATATATAT
* * *
62182324 ATATATATATATTTTTATATTA
1 ATATATACATATTTTAAAATTA
62182346 ATATATACATATTTTAAAATTA
1 ATATATACATATTTTAAAATTA
62182368 A
1 A
62182369 ATGAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATATACATATTTTAAAATTA
Found at i:62184558 original size:17 final size:16
Alignment explanation
Indices: 62184524--62184558 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
62184514 TGCAGATCCA
*
62184524 AACTTAAAATACTCTG
1 AACTTAAAATAATCTG
62184540 AACTTAAAATTAATCTG
1 AACTTAAAA-TAATCTG
62184557 AA
1 AA
62184559 TCAAATGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (16 bp):
AACTTAAAATAATCTG
Found at i:62192825 original size:148 final size:145
Alignment explanation
Indices: 62192562--62192857 Score: 495
Period size: 148 Copynumber: 2.0 Consensus size: 145
62192552 ATCAAAATAG
62192562 TTAACGATTAAATTGTTAATGTAGTTATTTTAAGAACATTTTTTCTCATCATGACATTGGACTGA
1 TTAACGATTAAATTGTTAATGTAGTTATTTTAAGAACATTTTTTCTCATCATGACATTGGACTGA
* *
62192627 GTATTTTTTAAAAAAAATTACATCAAGAATTTAATCGGAATAATTAACAGTGTTAACTATTTAAA
66 GTA--TTTTAAAAAAAATAACATCAAGAATTTAATCGAAATAATTAACAGTGTTAACTATTTAAA
62192692 GTATGAAATTATTAAAA
129 GTATGAAATTATTAAAA
*
62192709 TTAACGATTAAATTGTTAATGTAGTTATTTTTATGAACATTTTTTCTCATCATGACATATGGGAC
1 TTAACGATTAAATTGTTAATGTAGTTA-TTTTAAGAACATTTTTTCTCATCATGACAT-T-GGAC
*
62192774 TGAGTA-TTTAAAAAAAATCAACATCAAGAATTTAATTGAAATAATTAACAGTGTTAACTATTTA
63 TGAGTATTTTAAAAAAAAT-AACATCAAGAATTTAATCGAAATAATTAACAGTGTTAACTATTTA
62192838 AAGTATGAAATTATTAAAA
127 AAGTATGAAATTATTAAAA
62192857 T
1 T
62192858 GGATAATTAA
Statistics
Matches: 141, Mismatches: 4, Indels: 7
0.93 0.03 0.05
Matches are distributed among these distances:
147 39 0.28
148 91 0.65
149 1 0.01
150 10 0.07
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (145 bp):
TTAACGATTAAATTGTTAATGTAGTTATTTTAAGAACATTTTTTCTCATCATGACATTGGACTGA
GTATTTTAAAAAAAATAACATCAAGAATTTAATCGAAATAATTAACAGTGTTAACTATTTAAAGT
ATGAAATTATTAAAA
Found at i:62194244 original size:12 final size:12
Alignment explanation
Indices: 62194227--62194251 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62194217 AACTAATCTC
62194227 CTTTTAGATTCT
1 CTTTTAGATTCT
62194239 CTTTTAGATTCT
1 CTTTTAGATTCT
62194251 C
1 C
62194252 ACCTAAACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.20, G:0.08, T:0.56
Consensus pattern (12 bp):
CTTTTAGATTCT
Found at i:62195686 original size:34 final size:35
Alignment explanation
Indices: 62195648--62195724 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 35
62195638 GTAATGTGGC
* * *
62195648 ATACTTATAAG-AGATCACTATGATAGCAATTAAT
1 ATACTTATAAGTAGATCAATACGATAACAATTAAT
*
62195682 ATACTTAT-AGTAGATCAATACGATAACAATTATT
1 ATACTTATAAGTAGATCAATACGATAACAATTAAT
*
62195716 ATGCTTATA
1 ATACTTATA
62195725 CTAATTCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 2 0.06
34 34 0.94
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (35 bp):
ATACTTATAAGTAGATCAATACGATAACAATTAAT
Found at i:62202363 original size:30 final size:30
Alignment explanation
Indices: 62202327--62202397 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
62202317 ACAATCCAAG
*
62202327 ATAGTTGGGTGATC-AAAAAGACAA-AACTAA
1 ATAGTTGGGTGACCAAAAAAGA-AATAACT-A
* *
62202357 ATAGTTGAGTGACCAAAAAAGAAATTACTA
1 ATAGTTGGGTGACCAAAAAAGAAATAACTA
62202387 ATAGTTGGGTG
1 ATAGTTGGGTG
62202398 GCTACTATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 25 0.71
31 10 0.29
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (30 bp):
ATAGTTGGGTGACCAAAAAAGAAATAACTA
Found at i:62203910 original size:2 final size:2
Alignment explanation
Indices: 62203903--62203955 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
62203893 GAAGTAAGGC
62203903 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
62203945 AT AT AT AT AT A
1 AT AT AT AT AT A
62203956 NNNNNNNNNN
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62211638 original size:30 final size:29
Alignment explanation
Indices: 62211605--62211660 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
62211595 AAAAAGCCTT
62211605 TTTTTTCAA-TATTTACCGAAATGGGCCGG
1 TTTTTT-AATTATTTACCGAAATGGGCCGG
*
62211634 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATTATTTACCGAAATGGGCC
62211661 ATTTTTCGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (29 bp):
TTTTTTAATTATTTACCGAAATGGGCCGG
Found at i:62211982 original size:40 final size:42
Alignment explanation
Indices: 62211894--62211983 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 42
62211884 ATTTTCCGCG
* * *
62211894 AAATCGCGTCCACGTCAGCGCGATATCAGGGTACGTGTCAGG
1 AAATCGCGTCCACGTCAGCGCGATATCAGCGTACGTGACAGC
* * *
62211936 ACATCGCGTCCACGTCAGCGCGAT-T-TGCTTACGTGGACA-C
1 AAATCGCGTCCACGTCAGCGCGATATCAGCGTACGT-GACAGC
62211976 AAATCGCG
1 AAATCGCG
62211984 CCTACGAGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
40 13 0.32
41 4 0.10
42 23 0.57
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (42 bp):
AAATCGCGTCCACGTCAGCGCGATATCAGCGTACGTGACAGC
Found at i:62211990 original size:223 final size:222
Alignment explanation
Indices: 62211594--62212037 Score: 762
Period size: 223 Copynumber: 2.0 Consensus size: 222
62211584 TATTTTACCA
**
62211594 AAAAAAGCCTTTTTTTTCAATATTTACCGAAATGGGCCGGTTTTTTAATTATTTACCGGAATGGG
1 AAAAAAGCCTTTTTTTTCAATATTTACCGAAATAAGCCGGTTTTTTAATTATTTACCGGAATGGG
* * *
62211659 CCATTTTTCGCGAAATCGCGTCCACGTAAGCGCGATGTCAGGGTACATGTCAGGACATTGCATCC
66 CCATTTTCCGCGAAATCGCGTCCACGTAAGCGCGATATCAGGGTACATGTCAGGACATCGCATCC
*
62211724 ACGTCAACGCGATTTGCTTACGTGGACACAAATCGCACCTACGAGGATGCGATTTGCTGACGTGG
131 ACGTCAACGCGATTTGCTTACGTGGACACAAATCGCACCTACGAGGACGCGATTTGCTGACGTGG
62211789 CATGAACAGTTTATGTTTTTCAACTTT
196 CATGAACAGTTTATGTTTTTCAACTTT
*
62211816 AAAAAAGCCCTTTTTTTTCAATATTTATCGAAATAAGCCGGTTTTTTAATTATTTACCGGAATGG
1 AAAAAAG-CCTTTTTTTTCAATATTTACCGAAATAAGCCGGTTTTTTAATTATTTACCGGAATGG
* * *
62211881 GCCATTTTCCGCGAAATCGCGTCCACGTCAGCGCGATATCAGGGTACGTGTCAGGACATCGCGTC
65 GCCATTTTCCGCGAAATCGCGTCCACGTAAGCGCGATATCAGGGTACATGTCAGGACATCGCATC
* *
62211946 CACGTCAGCGCGATTTGCTTACGTGGACACAAATCGCGCCTACGAGGACGCGATTTGCTGACGTG
130 CACGTCAACGCGATTTGCTTACGTGGACACAAATCGCACCTACGAGGACGCGATTTGCTGACGTG
*
62212011 GCATGAACAGTTTATGTTTTTTAACTT
195 GCATGAACAGTTTATGTTTTTCAACTT
62212038 GGAAAACTTT
Statistics
Matches: 208, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
222 7 0.03
223 201 0.97
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (222 bp):
AAAAAAGCCTTTTTTTTCAATATTTACCGAAATAAGCCGGTTTTTTAATTATTTACCGGAATGGG
CCATTTTCCGCGAAATCGCGTCCACGTAAGCGCGATATCAGGGTACATGTCAGGACATCGCATCC
ACGTCAACGCGATTTGCTTACGTGGACACAAATCGCACCTACGAGGACGCGATTTGCTGACGTGG
CATGAACAGTTTATGTTTTTCAACTTT
Found at i:62214037 original size:20 final size:19
Alignment explanation
Indices: 62213993--62214037 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
62213983 ACAAATAAAT
*
62213993 AAAAAGAAAAAGGAAATAG
1 AAAAAGAAAAAGGAAACAG
*
62214012 AAAAAGAAAGAATGAAACAG
1 AAAAAGAAA-AAGGAAACAG
*
62214032 AGAAAG
1 AAAAAG
62214038 CCAAACGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.71, C:0.02, G:0.22, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAAAGGAAACAG
Found at i:62214948 original size:41 final size:39
Alignment explanation
Indices: 62214903--62215038 Score: 116
Period size: 40 Copynumber: 3.5 Consensus size: 39
62214893 CGACTTCGAG
62214903 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAA-TTA-TACTTCGGATTAAT
* * * * **
62214944 TCGATGAGGCACTGGGTGCCAATT-TACTTCAGTTTAGC
1 TCGATGAGACACTGGGTGTCAATTATACTTCGGATTAAT
* *
62214982 T-GATGAGACACTAGGTGTCAAATTATTACTTCGAATT-AT
1 TCGATGAGACACTGGGTGTC-AATTA-TACTTCGGATTAAT
* * *
62215021 CCGATAAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
62215039 CTAAACTGGT
Statistics
Matches: 73, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 15 0.21
38 15 0.21
40 23 0.32
41 20 0.27
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTATACTTCGGATTAAT
Found at i:62216465 original size:32 final size:33
Alignment explanation
Indices: 62216413--62216490 Score: 76
Period size: 34 Copynumber: 2.4 Consensus size: 33
62216403 ATAAGGTTTA
*
62216413 ATATTAT--TATAAAAATTTAAG-TTAA-AATAT
1 ATATTATAATATAAAAACTTAAGATTAAGAA-AT
*
62216443 ATATTATAATATAAAACCTTAAGAATTAAGTAAAT
1 ATATTATAATATAAAAACTTAAG-ATTAAG-AAAT
62216478 ATA-TATAATATAA
1 ATATTATAATATAA
62216491 TAATAAAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 7 0.17
32 12 0.30
34 14 0.35
35 5 0.12
36 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (33 bp):
ATATTATAATATAAAAACTTAAGATTAAGAAAT
Found at i:62216523 original size:13 final size:13
Alignment explanation
Indices: 62216469--62216516 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
62216459 CCTTAAGAAT
62216469 TAAGTAAATATATA
1 TAAGTAAATATA-A
*
62216483 TAA-TATA-ATAA
1 TAAGTAAATATAA
62216494 TAAAGTAAATATAA
1 T-AAGTAAATATAA
62216508 TAAGTAAAT
1 TAAGTAAAT
62216517 GAAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 2 0.07
12 5 0.17
13 14 0.48
14 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
TAAGTAAATATAA
Found at i:62217493 original size:37 final size:40
Alignment explanation
Indices: 62217398--62217501 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 40
62217388 AACTTCGAGT
* **
62217398 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCAGATTAAGC
* *
62217439 CGATGAGGCACTGGGTGTCAA-TT-TACTTCAG-TTTAGC
1 CGATGAGACACTGGGTGTCAATTTATACTTCAGATTAAGC
* *
62217476 CGATGAGACACTAGGTGTCAAATTAT
1 CGATGAGACACTGGGTGTCAATTTAT
62217502 TACGTCGAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
37 22 0.41
38 9 0.17
39 1 0.02
40 2 0.04
41 20 0.37
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCAGATTAAGC
Found at i:62218220 original size:58 final size:58
Alignment explanation
Indices: 62218130--62218247 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
62218120 AATAAGATTA
62218130 TAAGTTAATATTGGTTGGTTATATACATATAAACATGTGTTTATGTTTGAGGTCATAT
1 TAAGTTAATATTGGTTGGTTATATACATATAAACATGTGTTTATGTTTGAGGTCATAT
*
62218188 TAAGTTAATATTGGTTGGTTATATACATATAAATATGTGTTTATGTTTGAGGTCATAT
1 TAAGTTAATATTGGTTGGTTATATACATATAAACATGTGTTTATGTTTGAGGTCATAT
62218246 TA
1 TA
62218248 TGGCAAGTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (58 bp):
TAAGTTAATATTGGTTGGTTATATACATATAAACATGTGTTTATGTTTGAGGTCATAT
Found at i:62231186 original size:130 final size:130
Alignment explanation
Indices: 62230953--62231218 Score: 532
Period size: 130 Copynumber: 2.0 Consensus size: 130
62230943 GACAGGATTG
62230953 ATGAAAAATGTTAGCCCGGGGACTAAAAATATGCTTTTTCAAAAGATAAAGGGACTAAATCTACC
1 ATGAAAAATGTTAGCCCGGGGACTAAAAATATGCTTTTTCAAAAGATAAAGGGACTAAATCTACC
62231018 AAAAATGCATAGTATAGGGATTTTATATGGAATTTGACCTTTTATACACTACCTTAGATATTAAA
66 AAAAATGCATAGTATAGGGATTTTATATGGAATTTGACCTTTTATACACTACCTTAGATATTAAA
62231083 ATGAAAAATGTTAGCCCGGGGACTAAAAATATGCTTTTTCAAAAGATAAAGGGACTAAATCTACC
1 ATGAAAAATGTTAGCCCGGGGACTAAAAATATGCTTTTTCAAAAGATAAAGGGACTAAATCTACC
62231148 AAAAATGCATAGTATAGGGATTTTATATGGAATTTGACCTTTTATACACTACCTTAGATATTAAA
66 AAAAATGCATAGTATAGGGATTTTATATGGAATTTGACCTTTTATACACTACCTTAGATATTAAA
62231213 ATGAAA
1 ATGAAA
62231219 CCTACAATAA
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 136 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (130 bp):
ATGAAAAATGTTAGCCCGGGGACTAAAAATATGCTTTTTCAAAAGATAAAGGGACTAAATCTACC
AAAAATGCATAGTATAGGGATTTTATATGGAATTTGACCTTTTATACACTACCTTAGATATTAAA
Found at i:62233652 original size:15 final size:15
Alignment explanation
Indices: 62233634--62233676 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
62233624 GTTTTACTTC
62233634 TTAAAAATTTAAAAT
1 TTAAAAATTTAAAAT
62233649 TT-AAAATTTAAAAT
1 TTAAAAATTTAAAAT
* *
62233663 TAAAAAACTTAAAA
1 TTAAAAATTTAAAA
62233677 AATAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
TTAAAAATTTAAAAT
Found at i:62233676 original size:7 final size:7
Alignment explanation
Indices: 62233637--62233667 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
62233627 TTACTTCTTA
62233637 AAAATTT
1 AAAATTT
62233644 AAAATTT
1 AAAATTT
62233651 AAAATTT
1 AAAATTT
62233658 AAAA-TT
1 AAAATTT
62233664 AAAA
1 AAAA
62233668 AACTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (7 bp):
AAAATTT
Found at i:62233924 original size:31 final size:31
Alignment explanation
Indices: 62233886--62234038 Score: 127
Period size: 31 Copynumber: 5.1 Consensus size: 31
62233876 CCAGAGTGTA
* *
62233886 AACTTGTAAACTTGCTAATAATTTAGTGACC
1 AACTTGTAAACTTACTAATAATTGAGTGACC
* * * *
62233917 AACTTGT-AGCTTTCTGA-AATTTAGTGACC
1 AACTTGTAAACTTACTAATAATTGAGTGACC
* *
62233946 GAA-TTATAAACTTACTAATAGTTGAGTGACC
1 -AACTTGTAAACTTACTAATAATTGAGTGACC
* ** * *
62233977 AGCTTGT-AACTTTTTGA-AATTCAGTGACC
1 AACTTGTAAACTTACTAATAATTGAGTGACC
* *
62234006 AAATTGTAAACTTACTAATAGTTGAGTGACC
1 AACTTGTAAACTTACTAATAATTGAGTGACC
62234037 AA
1 AA
62234039 ATTTTAAATT
Statistics
Matches: 93, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
29 30 0.32
30 31 0.33
31 32 0.34
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (31 bp):
AACTTGTAAACTTACTAATAATTGAGTGACC
Found at i:62233941 original size:29 final size:29
Alignment explanation
Indices: 62233886--62234014 Score: 100
Period size: 29 Copynumber: 4.3 Consensus size: 29
62233876 CCAGAGTGTA
* *
62233886 AACTTGTAAACTTGCTAATAATTTAGTGACC
1 AACTTGT-AACTTTCTGA-AATTTAGTGACC
*
62233917 AACTTGTAGCTTTCTGAAATTTAGTGACC
1 AACTTGTAACTTTCTGAAATTTAGTGACC
* * *
62233946 GAA-TTATAAACTTACT-AATAGTTGAGTGACC
1 -AACTTGT-AACTTTCTGAA-A-TTTAGTGACC
* * *
62233977 AGCTTGTAACTTTTTGAAATTCAGTGACC
1 AACTTGTAACTTTCTGAAATTTAGTGACC
*
62234006 AAATTGTAA
1 AACTTGTAA
62234015 ACTTACTAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
29 33 0.42
30 24 0.31
31 21 0.27
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (29 bp):
AACTTGTAACTTTCTGAAATTTAGTGACC
Found at i:62233995 original size:60 final size:60
Alignment explanation
Indices: 62233892--62234038 Score: 213
Period size: 60 Copynumber: 2.5 Consensus size: 60
62233882 TGTAAACTTG
* * * * * *
62233892 TAAACTTGCTAATAATTTAGTGACCAACTTGTAGCTTTCTGAAATTTAGTGACCGAATTA
1 TAAACTTACTAATAGTTGAGTGACCAACTTGTAACTTTCTGAAATTCAGTGACCAAATTA
* * *
62233952 TAAACTTACTAATAGTTGAGTGACCAGCTTGTAACTTTTTGAAATTCAGTGACCAAATTG
1 TAAACTTACTAATAGTTGAGTGACCAACTTGTAACTTTCTGAAATTCAGTGACCAAATTA
62234012 TAAACTTACTAATAGTTGAGTGACCAA
1 TAAACTTACTAATAGTTGAGTGACCAA
62234039 ATTTTAAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 77 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (60 bp):
TAAACTTACTAATAGTTGAGTGACCAACTTGTAACTTTCTGAAATTCAGTGACCAAATTA
Found at i:62236810 original size:48 final size:48
Alignment explanation
Indices: 62236652--62236830 Score: 143
Period size: 48 Copynumber: 3.8 Consensus size: 48
62236642 ATTCCATCAC
** ** *
62236652 CTCCATCAGGACACAAAGTACAACTTAATGCTTCTGCTCTGTCCCCTT
1 CTCCATCAAAACACAAAGTACAACCCAATGCTTCTACTCTGTCCCCTT
* * * * * ** *
62236700 CTCCATCGAAAGACAAAGCACGACCTAATTTTTCTACTCCGAT-CCC-T
1 CTCCATCAAAACACAAAGTACAACCCAATGCTTCTACTCTG-TCCCCTT
* **
62236747 -T-CATCAAAA-AGCAAAGTACGACCCAATGCTTCTTTTCTGTCCCCTT
1 CTCCATCAAAACA-CAAAGTACAACCCAATGCTTCTACTCTGTCCCCTT
* *
62236793 CTCCATCAAAACACAAAGGACAATCCAATGCTTCTACT
1 CTCCATCAAAACACAAAGTACAACCCAATGCTTCTACT
62236831 TCACGTCCTC
Statistics
Matches: 100, Mismatches: 24, Indels: 14
0.72 0.17 0.10
Matches are distributed among these distances:
44 2 0.02
45 31 0.31
46 2 0.02
47 2 0.02
48 61 0.61
49 2 0.02
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (48 bp):
CTCCATCAAAACACAAAGTACAACCCAATGCTTCTACTCTGTCCCCTT
Found at i:62241469 original size:17 final size:17
Alignment explanation
Indices: 62241447--62241479 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62241437 AGTTTCACTA
62241447 TTATAAATACAATACAT
1 TTATAAATACAATACAT
*
62241464 TTATAAGTACAATACA
1 TTATAAATACAATACA
62241480 AATACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (17 bp):
TTATAAATACAATACAT
Found at i:62242569 original size:2 final size:2
Alignment explanation
Indices: 62242562--62242588 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62242552 TATAAACATG
62242562 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
62242589 TTAATTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62243818 original size:2 final size:2
Alignment explanation
Indices: 62243811--62243842 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
62243801 CTTACACATG
62243811 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
62243843 CTACATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62250219 original size:4 final size:4
Alignment explanation
Indices: 62250212--62250244 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
62250202 TGGTAATAGC
62250212 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
62250245 CCCATTGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:62250832 original size:2 final size:2
Alignment explanation
Indices: 62250825--62250863 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
62250815 TGTCATATGA
62250825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62250864 GGTATTGTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62251135 original size:3 final size:3
Alignment explanation
Indices: 62251129--62251154 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
62251119 GGAAGAAGAA
62251129 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
62251155 TCGTAACAAG
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:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:62251366 original size:4 final size:4
Alignment explanation
Indices: 62251357--62251395 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
62251347 TAGTAAGTTG
62251357 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
62251396 TATATGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:62253219 original size:2 final size:2
Alignment explanation
Indices: 62253212--62253242 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
62253202 AATGCATGAA
62253212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62253243 AAATTTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62255111 original size:23 final size:19
Alignment explanation
Indices: 62255097--62255135 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
62255087 TGTCAATCCT
62255097 AAAATGTAACTTTTGTCAA
1 AAAATGTAACTTTTGTCAA
*
62255116 AATATGTAACTTTTGTCAA
1 AAAATGTAACTTTTGTCAA
62255135 A
1 A
62255136 TACATGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (19 bp):
AAAATGTAACTTTTGTCAA
Found at i:62268253 original size:129 final size:129
Alignment explanation
Indices: 62267994--62268246 Score: 416
Period size: 129 Copynumber: 2.0 Consensus size: 129
62267984 TATATTGATC
* *
62267994 ATTTGAATATTCAAATAGAATGTTTTGAAGTTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
1 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
** * * *
62268059 AGCAATGTTGTTGAAACCATATTGGATCGTTTAGTCAGATTCGTTGGATCATGAATTGACCGGT
66 AGCAATGTTGTTGAAACCATATTCAACCGTCTAGTCAGATTCGTTGGATCAGGAATTGACCGGT
*
62268123 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATTTAAAACCTAAGTCATAGTTCG
1 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
* *
62268188 AGCAATGTTGTTGGAACCATATTCAACCGTCTAGTCAGATTGGTTGGATCAGGAATTGA
66 AGCAATGTTGTTGAAACCATATTCAACCGTCTAGTCAGATTCGTTGGATCAGGAATTGA
62268247 TTGGTATACC
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 114 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (129 bp):
ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
AGCAATGTTGTTGAAACCATATTCAACCGTCTAGTCAGATTCGTTGGATCAGGAATTGACCGGT
Found at i:62269237 original size:35 final size:35
Alignment explanation
Indices: 62269182--62269265 Score: 114
Period size: 35 Copynumber: 2.3 Consensus size: 35
62269172 TCTTTTTCAA
62269182 TTATCTATATTTTTTATATATTTAAAATTTAATCCTC
1 TTAT-TATA-TTTTTATATATTTAAAATTTAATCCTC
* *
62269219 TTATTATATTTTTGTATATTTAAAATTTAATCTTC
1 TTATTATATTTTTATATATTTAAAATTTAATCCTC
*
62269254 CTATTATTATTT
1 TTATTA-TATTT
62269266 CAAGATATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 30 0.70
36 9 0.21
37 4 0.09
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (35 bp):
TTATTATATTTTTATATATTTAAAATTTAATCCTC
Found at i:62269274 original size:36 final size:35
Alignment explanation
Indices: 62269198--62269276 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
62269188 ATATTTTTTA
* **
62269198 TATATTTAAAATTTAATCCTCTTATTATATTTTTG
1 TATATTTAAAATTTAATCCTCCTATTATATTTAAG
*
62269233 TATATTTAAAATTTAATCTTCCTATTATTATTTCAAG
1 TATATTTAAAATTTAATCCTCCTATTA-TATTT-AAG
62269270 -ATATTTA
1 TATATTTA
62269277 GTTTTTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 25 0.66
36 12 0.32
37 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (35 bp):
TATATTTAAAATTTAATCCTCCTATTATATTTAAG
Found at i:62271407 original size:23 final size:23
Alignment explanation
Indices: 62271377--62271420 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
62271367 TGGGTGGGCA
62271377 GTTTTCTGAATAAT-CTGTATTAT
1 GTTTTCTGAA-AATACTGTATTAT
*
62271400 GTTTTCTGGAAATACTGTATT
1 GTTTTCTGAAAATACTGTATT
62271421 GACATAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (23 bp):
GTTTTCTGAAAATACTGTATTAT
Found at i:62276708 original size:16 final size:17
Alignment explanation
Indices: 62276681--62276712 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
62276671 TAATAAATGA
62276681 TAAATATATAAAATTAT
1 TAAATATATAAAATTAT
62276698 TAAATAT-TAAAATTA
1 TAAATATATAAAATTA
62276713 AAATTACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATAAAATTAT
Found at i:62276988 original size:47 final size:47
Alignment explanation
Indices: 62276919--62277013 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
62276909 ACATGATGAC
*
62276919 AATGGTATTATTTTTTAGGGTTAATTACAAAGTTTCATATAAATCAT
1 AATGGTATTATTTTTTAGGGTTAATTACAAAGTTGCATATAAATCAT
62276966 AATGGTATTATTTTTTAGGGTTAATTACAAAGTTGCATATAAATCAT
1 AATGGTATTATTTTTTAGGGTTAATTACAAAGTTGCATATAAATCAT
62277013 A
1 A
62277014 CTCTTTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (47 bp):
AATGGTATTATTTTTTAGGGTTAATTACAAAGTTGCATATAAATCAT
Found at i:62279201 original size:74 final size:74
Alignment explanation
Indices: 62279080--62279229 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
62279070 TAGTTTGCAT
62279080 CCGACAATTACACATGGTGAGATAAAATCTAGATTAAGAACTCACACATGTAAACGCACACAATA
1 CCGACAATTACACATGGTGAGATAAAATCTAGATTAAGAACTCACACATGTAAACGCACACAATA
62279145 GGACTCGAA
66 GGACTCGAA
62279154 CCGACAATTACACATGGTGAGATAAAATCTAGATTAAGAACTCACACATGTAAACGCACACAATA
1 CCGACAATTACACATGGTGAGATAAAATCTAGATTAAGAACTCACACATGTAAACGCACACAATA
62279219 GGACTCGAA
66 GGACTCGAA
62279228 CC
1 CC
62279230 TAGACACTTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.19
Consensus pattern (74 bp):
CCGACAATTACACATGGTGAGATAAAATCTAGATTAAGAACTCACACATGTAAACGCACACAATA
GGACTCGAA
Found at i:62286161 original size:2 final size:2
Alignment explanation
Indices: 62286154--62286198 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
62286144 TTGTTAGTTT
62286154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62286193 TA -A TA T
1 TA TA TA T
62286199 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.10
2 35 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:62287017 original size:2 final size:2
Alignment explanation
Indices: 62286978--62287004 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62286968 NNNNNNNNNN
62286978 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
62287005 GTTTAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62289204 original size:23 final size:24
Alignment explanation
Indices: 62289152--62289196 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
62289142 TAGGTGGAGA
*
62289152 AGTTATTTTATGGATTTTTTTACT
1 AGTTATTTTATAGATTTTTTTACT
62289176 ATGTTA-TTTATAG-TTTTTTTA
1 A-GTTATTTTATAGATTTTTTTA
62289197 ATTAGTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 7 0.37
25 4 0.21
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.64
Consensus pattern (24 bp):
AGTTATTTTATAGATTTTTTTACT
Found at i:62301230 original size:62 final size:61
Alignment explanation
Indices: 62301099--62301249 Score: 135
Period size: 62 Copynumber: 2.4 Consensus size: 61
62301089 AATTTTTCTA
* *** * *
62301099 CTCTCAAAATTTTTGAAAATTTTAATTACACCATTATTTTTTTTAGAAATTCTAATTAATCC
1 CTCT-AAAAATTTTGAAAATTTTAATTACACCATTAGAATTTTTAGAAATCCTAATTAAACC
* * *
62301161 ATATAAAAATTTTGAAAATTTTAATTAGACTC-TCTAGAATTTTTA-AAACTCCTAATTAAACC
1 CTCTAAAAATTTTGAAAATTTTAATTACAC-CAT-TAGAATTTTTAGAAA-TCCTAATTAAACC
* * *
62301223 CTCTAAAAGTTTTAAAAACTTTGAATT
1 CTCTAAAAATTTTGAAAA-TTTTAATT
62301250 CTCTTTAAGC
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
61 28 0.39
62 36 0.51
63 7 0.10
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (61 bp):
CTCTAAAAATTTTGAAAATTTTAATTACACCATTAGAATTTTTAGAAATCCTAATTAAACC
Found at i:62305636 original size:20 final size:19
Alignment explanation
Indices: 62305613--62305650 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
62305603 TGTTTTCCAT
*
62305613 ATTAATTTTATTTTGATAAA
1 ATTAACTTTATTTT-ATAAA
62305633 ATTAACTTTATTTTATAA
1 ATTAACTTTATTTTATAA
62305651 CTTTTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTAACTTTATTTTATAAA
Found at i:62308123 original size:29 final size:29
Alignment explanation
Indices: 62308053--62308127 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
62308043 GATATAATTT
* * * *
62308053 GAACTTATTTGATTCTTTTTAATAGTATAA
1 GAACTAATTTGATTC-ATTTAATAATAAAA
* *
62308083 GGACTAAATTGATTCATTTAATAATAAAA
1 GAACTAATTTGATTCATTTAATAATAAAA
*
62308112 GAATTAATTTGATTCA
1 GAACTAATTTGATTCA
62308128 ATCCATATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 24 0.67
30 12 0.33
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.43
Consensus pattern (29 bp):
GAACTAATTTGATTCATTTAATAATAAAA
Found at i:62310508 original size:52 final size:52
Alignment explanation
Indices: 62310426--62310661 Score: 215
Period size: 53 Copynumber: 4.5 Consensus size: 52
62310416 AGCCCCACAA
* * * *
62310426 TTAATCCTACCTCAATTAGGATTTATATAAGCTTTTCTTTTT-AGTTTTTCAT
1 TTAATCCCA-CTCAATTAGGATTTAAATAAGCTTATCTTTTTAAATTTTTCAT
* * * * **
62310478 TCAATCCCATCTCAATTAGGATTTAAATAAGTTTTTCTTTTTAATTTTTTGTT
1 TTAATCCCA-CTCAATTAGGATTTAAATAAGCTTATCTTTTTAAATTTTTCAT
* * * *
62310531 TTAATTCCACCCAAATTAGGATTTATATAAGCTTATCTTTTTAAATTTTTGAT
1 TTAATCCCACTC-AATTAGGATTTAAATAAGCTTATCTTTTTAAATTTTTCAT
** * * * *
62310584 TTAATTTCACCTCAATTAAGATTTACATAAACTTATCCTTTT-AATTTTTCAT
1 TTAATCCCA-CTCAATTAGGATTTAAATAAGCTTATCTTTTTAAATTTTTCAT
* *
62310636 TTAATCTCACATCAATAAGGATTTAA
1 TTAATCCCAC-TCAATTAGGATTTAA
62310662 GCTTATGTAA
Statistics
Matches: 153, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 68 0.44
53 82 0.54
54 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (52 bp):
TTAATCCCACTCAATTAGGATTTAAATAAGCTTATCTTTTTAAATTTTTCAT
Found at i:62310639 original size:105 final size:105
Alignment explanation
Indices: 62310439--62310640 Score: 253
Period size: 106 Copynumber: 1.9 Consensus size: 105
62310429 ATCCTACCTC
* * * *
62310439 AATTAGGATTTATATAAGCTTTTCTTTTTAGTTTTTCATTCAATCCCATCTCAATTAGGATTTAA
1 AATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCATTCAATCCCACCTCAATTAAGATTTAA
** * * **
62310504 ATAAGTTTTTCTTTTTAATTTTTTGTTTTAATTCCACCCA
66 ATAAACTTATCCTTTTAATTTTTTCATTTAATTCCACCCA
* * **
62310544 AATTAGGATTTATATAAGCTTATCTTTTTAAATTTTTGATTTAATTTCACCTCAATTAAGATTTA
1 AATTAGGATTTATATAAGCTTATCTTTTT-AATTTTTCATTCAATCCCACCTCAATTAAGATTTA
*
62310609 CATAAACTTATCCTTTTAA-TTTTTCATTTAAT
65 AATAAACTTATCCTTTTAATTTTTTCATTTAAT
62310641 CTCACATCAA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
105 39 0.48
106 42 0.52
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (105 bp):
AATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCATTCAATCCCACCTCAATTAAGATTTAA
ATAAACTTATCCTTTTAATTTTTTCATTTAATTCCACCCA
Found at i:62310657 original size:105 final size:104
Alignment explanation
Indices: 62310436--62310660 Score: 247
Period size: 105 Copynumber: 2.1 Consensus size: 104
62310426 TTAATCCTAC
* * * *
62310436 CTCAATTAGGATTTATATAAGCTTTTCTTTTTAGTTTTTCATTCAATCCCATCTCAATTAGGATT
1 CTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCATTCAATCCCACCTCAATTAAGATT
** * * **
62310501 TAAATAAGTTTTTCTTTTTAATTTTTTGTTTTAATTCCA
66 TAAATAAACTTATCCTTTTAATTTTTTCATTTAATTCCA
* * * **
62310540 CCCAAATTAGGATTTATATAAGCTTATCTTTTTAAATTTTTGATTTAATTTCACCTCAATTAAGA
1 CTC-AATTAGGATTTATATAAGCTTATCTTTTT-AATTTTTCATTCAATCCCACCTCAATTAAGA
*
62310605 TTTACATAAACTTATCCTTTTAA-TTTTTCATTTAA-TCTCA
64 TTTAAATAAACTTATCCTTTTAATTTTTTCATTTAATTC-CA
*
62310645 CATCAATAAGGATTTA
1 C-TCAATTAGGATTTA
62310661 AGCTTATGTA
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
104 4 0.04
105 52 0.53
106 43 0.43
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (104 bp):
CTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCATTCAATCCCACCTCAATTAAGATT
TAAATAAACTTATCCTTTTAATTTTTTCATTTAATTCCA
Found at i:62317580 original size:22 final size:22
Alignment explanation
Indices: 62317562--62317606 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
62317552 AATCTTTTCT
62317562 TTTACTAGAAATTTACTTTTTA
1 TTTACTAGAAATTTACTTTTTA
*
62317584 TTTACTAGAAATTTTATTTTTTA
1 TTTACTAGAAA-TTTACTTTTTA
62317607 AATATTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTACTAGAAATTTACTTTTTA
Found at i:62325400 original size:41 final size:41
Alignment explanation
Indices: 62325343--62325425 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
62325333 TATTATCTAA
62325343 TAGTCATATTGAACTCTAAGCAAAGATCTCCTATAGCTATT
1 TAGTCATATTGAACTCTAAGCAAAGATCTCCTATAGCTATT
62325384 TAGTCATATTGAACTCTAAGCAAAGATCTCCTATAGCTATT
1 TAGTCATATTGAACTCTAAGCAAAGATCTCCTATAGCTATT
62325425 T
1 T
62325426 TCTATCTCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (41 bp):
TAGTCATATTGAACTCTAAGCAAAGATCTCCTATAGCTATT
Found at i:62332185 original size:2 final size:2
Alignment explanation
Indices: 62332178--62332213 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
62332168 ATGAGTGTCA
*
62332178 AT AT AT AT AT AT AT AC 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
62332214 GGACAACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:62349434 original size:118 final size:119
Alignment explanation
Indices: 62349209--62349435 Score: 352
Period size: 118 Copynumber: 1.9 Consensus size: 119
62349199 TATATTAGAT
62349209 TATTCCAAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAA
1 TATTCCAAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAA
* * ** *
62349274 AAATGGATCATTAATGGGGTTCAAAAGAAGGTTATATAAACAATCTCGGTCAAA
66 AAATGGATCATCAATGGGGGTCAAAAGAAAATCATATAAACAATCTCGGTCAAA
*
62349328 TATTCCAAAAATATGGGATTTGGG-A-ATCCTCTACTATCCATAATAACAACACATAATAGCTCA
1 TATTCCAAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACAT-ATAGCTCA
*
62349391 AAAATGGATCATCAGTGGGGGTCAAAAGAAAATCATA-AGAACAAT
65 AAAATGGATCATCAATGGGGGTCAAAAGAAAATCATATA-AACAAT
62349436 TTAGGTTTAG
Statistics
Matches: 99, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
117 30 0.30
118 46 0.46
119 23 0.23
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (119 bp):
TATTCCAAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAA
AAATGGATCATCAATGGGGGTCAAAAGAAAATCATATAAACAATCTCGGTCAAA
Found at i:62357963 original size:24 final size:24
Alignment explanation
Indices: 62357935--62357986 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
62357925 TTAGTAAGTC
* *
62357935 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
62357959 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
62357983 AAAT
1 AAAT
62357987 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:62359930 original size:24 final size:24
Alignment explanation
Indices: 62359902--62359953 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
62359892 TTAGTAAGTG
* *
62359902 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
62359926 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
62359950 AAAT
1 AAAT
62359954 CTTCTAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:62361118 original size:110 final size:114
Alignment explanation
Indices: 62360832--62361137 Score: 378
Period size: 110 Copynumber: 2.7 Consensus size: 114
62360822 TAATAATGTA
* *
62360832 TGTTTGTTTTAG-GTTTTAGGAA-GA--ACTGAACCAGCTTATATGTAACAAAACTGGACATGTT
1 TGTTTGTTTTAGTGTTTTA--AATGAGGACTAAACCAGTTTATATGT-A-AAAACTGGACATGTT
*
62360893 T-AAGCTTTAGCTTGGTGTCTGTAACCTAAGCTATAGCCTAGTGTTTTACTGTTGAC
62 TAAAGC-TTAGCTTGGTGTCTGTAACCTAAGCTAGAGCCTAGTG--TTA-TGTTGAC
* *
62360949 TGTTTGTTTTAGTGTTTTAAATTAGGACTAAACCAGTTTACATGTAAAAACTGGACATGTTTAAA
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
* * *
62361014 GCTTAGCTTGGTGTCTGTAATCTAAGCTGGAGCTTAGTG-T-T-TT-AC
66 GCTTAGCTTGGTGTCTGTAACCTAAGCTAGAGCCTAGTGTTATGTTGAC
* * *
62361059 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAGAACTGGTCATGTTTAAC
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
62361124 GCTTAGCTTGGTGT
66 GCTTAGCTTGGTGT
62361138 GTTTATATAT
Statistics
Matches: 171, Mismatches: 13, Indels: 17
0.85 0.06 0.08
Matches are distributed among these distances:
110 76 0.44
111 2 0.01
112 1 0.01
114 1 0.01
116 2 0.01
117 62 0.36
118 11 0.06
119 16 0.09
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (114 bp):
TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
GCTTAGCTTGGTGTCTGTAACCTAAGCTAGAGCCTAGTGTTATGTTGAC
Found at i:62361682 original size:209 final size:199
Alignment explanation
Indices: 62361199--62361973 Score: 1209
Period size: 194 Copynumber: 3.9 Consensus size: 199
62361189 TGGTGCTGAA
*
62361199 CTTGGTGTGTTTATATATGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATC
1 CTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATC
*
62361264 CAAGTTCAGCACCAGAAGCTAAAATCATCTCCCACAACAGACCCTAGCATT--T-TATATCTATA
66 CAAGTTCAGCACCAGAAGCTAAAATCATCTCCCACAACAGACCCTAGC-TTAATCTATATATATA
* *
62361326 TATATGGAGCTTTGACAAAACCAGTTTTATTATGTTAGAACTGGACATGTTGGACATGTATAAAT
130 TATATGGAGCTTTGACAAAACCAGTTTTATTATGTAAGAACTGGACATGTTGGACATGTTTAAAT
62361391 CTTAG
195 CTTAG
*
62361396 CCTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATC
1 CTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATC
62361461 CAAGTTCAGCACCAGAAGCTAAAATCATCTCCCACAACAGACCCTAGCTTTTTATATCTATATAT
66 CAAGTTCAGCACCAGAAGCTAAAATCATCTCCCACAACAGACCCTAGC---TTA-ATC------T
62361526 ATATATATATATATGGAGCTTTGACAAAACCAGTTTTATTATGTAAGAACTGGACATGTTGGACA
121 ATATATATATATATGGAGCTTTGACAAAACCAGTTTTATTATGTAAGAACTGGACATGTTGGACA
62361591 TGTTTAAATCTTAG
186 TGTTTAAATCTTAG
*
62361605 CTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAACGATGGAGTCACCATTGCTGAATC
1 CTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATC
* * *
62361670 CAAGTTCAGCACCACAAGCTAAAATCATCTCCCACAACAAACCCTAGC-TAGTCT-T-TATATAT
66 CAAGTTCAGCACCAGAAGCTAAAATCATCTCCCACAACAGACCCTAGCTTAATCTATATATATAT
*
62361732 ATATGGAGTTTTGACAAAACCAG-TTTA-TATGTAAGAACTGGACATGTTGGACATGTTTAAATC
131 ATATGGAGCTTTGACAAAACCAGTTTTATTATGTAAGAACTGGACATGTTGGACATGTTTAAATC
62361795 TTAG
196 TTAG
*
62361799 CTTGGTGTGTTTCTATGTGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATC
1 CTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATC
* *
62361864 CAAGTTCAGCACCAGAAGCTAAAATCATCTACCC-CAACGGACCCTAGC-TAGTCT-T-TATATA
66 CAAGTTCAGCACCAGAAGCTAAAATCATCT-CCCACAACAGACCCTAGCTTAATCTATATATATA
* *
62361925 TATATGGAGCTTTGACAAAACCA-ATTTA-CATGTAAGAACTGGACATGTT
130 TATATGGAGCTTTGACAAAACCAGTTTTATTATGTAAGAACTGGACATGTT
62361974 TAAGCTTATA
Statistics
Matches: 545, Mismatches: 19, Indels: 31
0.92 0.03 0.05
Matches are distributed among these distances:
194 203 0.37
195 7 0.01
196 29 0.05
197 112 0.21
198 1 0.00
199 2 0.00
202 1 0.00
204 2 0.00
205 2 0.00
209 186 0.34
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (199 bp):
CTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATC
CAAGTTCAGCACCAGAAGCTAAAATCATCTCCCACAACAGACCCTAGCTTAATCTATATATATAT
ATATGGAGCTTTGACAAAACCAGTTTTATTATGTAAGAACTGGACATGTTGGACATGTTTAAATC
TTAG
Found at i:62362238 original size:24 final size:23
Alignment explanation
Indices: 62362211--62362256 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62362201 TTACTATTCG
* *
62362211 ATTTATATATTGTTTAATTTTTTT
1 ATTTATAT-TTCTTTAACTTTTTT
*
62362235 ATTTTTATTTCTTTAACTTTTT
1 ATTTATATTTCTTTAACTTTTT
62362257 ACCTGAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (23 bp):
ATTTATATTTCTTTAACTTTTTT
Found at i:62379256 original size:14 final size:15
Alignment explanation
Indices: 62379237--62379274 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
62379227 GTTAATTTGA
62379237 TTTTTTATTTTTA-T
1 TTTTTTATTTTTACT
*
62379251 TTTTTTAGTTTTACT
1 TTTTTTATTTTTACT
62379266 TTTCTTTAT
1 TTT-TTTAT
62379275 GACATTAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 4 0.20
16 4 0.20
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTTTACT
Found at i:62382877 original size:108 final size:108
Alignment explanation
Indices: 62382688--62382980 Score: 414
Period size: 108 Copynumber: 2.7 Consensus size: 108
62382678 CTCCAAGCCA
* * *
62382688 AGTGACGTCTACTCCCAAG-CTTCGGAGCAAGCACACTCGACATTGATGGCTCATTAATCTCGGC
1 AGTGACGTCTACTCCCAAGCCTT-GGAGCAAGCGCACTCGACATTGATGGATCCTTAATCTCGGC
62382752 ACTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
65 ACTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
*
62382796 AGTGACGTCTACTCCCAAGCCTTGGAGTAAGCGCACTCGACATTGATGGATCCTTAATCTCGGCA
1 AGTGACGTCTACTCCCAAGCCTTGGAGCAAGCGCACTCGACATTGATGGATCCTTAATCTCGGCA
*
62382861 CCAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
66 CTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
* * * * * *
62382904 GGTGACGACTACTCCCACA-CCTCGGAGCAAGCGCACTC-ATCTTTGATGACAT-CTTAATCTCA
1 AGTGACGTCTACTCCCA-AGCCTTGGAGCAAGCGCACTCGA-CATTGATG-GATCCTTAATCTCG
*
62382966 GCACTGACAGTAGGC
63 GCACTAACAGTAGGC
62382981 ATAGGAGAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 160 0.96
109 6 0.04
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (108 bp):
AGTGACGTCTACTCCCAAGCCTTGGAGCAAGCGCACTCGACATTGATGGATCCTTAATCTCGGCA
CTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
Found at i:62389841 original size:24 final size:24
Alignment explanation
Indices: 62389814--62389861 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
62389804 GTTGTTATTC
* *
62389814 TTGTTGCTGCTATTGTTGCCGTTG
1 TTGTTACTGCTACTGTTGCCGTTG
* *
62389838 TTGTTACTGTTGCTGTTGCCGTTG
1 TTGTTACTGCTACTGTTGCCGTTG
62389862 CCGCTGTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.04, C:0.17, G:0.29, T:0.50
Consensus pattern (24 bp):
TTGTTACTGCTACTGTTGCCGTTG
Found at i:62397882 original size:18 final size:18
Alignment explanation
Indices: 62397859--62397893 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62397849 TCCGTTTTTG
*
62397859 TTGTTGCTATTGTTGCCA
1 TTGTTGCTAGTGTTGCCA
*
62397877 TTGTTGTTAGTGTTGCC
1 TTGTTGCTAGTGTTGCC
62397894 GTTGCCGTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.14, G:0.26, T:0.51
Consensus pattern (18 bp):
TTGTTGCTAGTGTTGCCA
Found at i:62398988 original size:8 final size:8
Alignment explanation
Indices: 62398975--62399016 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
62398965 GGGTAGAATG
62398975 AATTTTTA
1 AATTTTTA
62398983 AATTTTTA
1 AATTTTTA
62398991 AA-TTTTA
1 AATTTTTA
* *
62398998 TATCTTTA
1 AATTTTTA
62399006 TAATTTTTA
1 -AATTTTTA
62399015 AA
1 AA
62399017 GAATTAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 6 0.21
8 16 0.57
9 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (8 bp):
AATTTTTA
Found at i:62405400 original size:23 final size:24
Alignment explanation
Indices: 62405353--62405401 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
62405343 ACACTCATAT
* *
62405353 CCCCTTTGTTTTCTTTCCCATTTA
1 CCCCTTTGTTTCCCTTCCCATTTA
*
62405377 CCCCTTT-TTTCCCTTCTCATTTA
1 CCCCTTTGTTTCCCTTCCCATTTA
62405400 CC
1 CC
62405402 GTCCTTATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.08, C:0.39, G:0.02, T:0.51
Consensus pattern (24 bp):
CCCCTTTGTTTCCCTTCCCATTTA
Found at i:62405818 original size:40 final size:39
Alignment explanation
Indices: 62405765--62405846 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 39
62405755 CCTTCTGCAC
* * *
62405765 TCTTCTTTCAAGCT-CCAGATTACTTCAAGCTCCCTAGTT
1 TCTTCTTTCAAGCTCCCA-ATTACTTCAACCTCACTACTT
* *
62405804 TCTTGCTTTTAAGCTCCCAATTCCTTCAACCTCACTACTT
1 TCTT-CTTTCAAGCTCCCAATTACTTCAACCTCACTACTT
62405844 TCT
1 TCT
62405847 CCTTCAACCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.11
40 29 0.81
41 3 0.08
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (39 bp):
TCTTCTTTCAAGCTCCCAATTACTTCAACCTCACTACTT
Found at i:62413324 original size:20 final size:20
Alignment explanation
Indices: 62413296--62413334 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62413286 TTCGCATGTG
*
62413296 TTTGCGTGATTATTGTAAAT
1 TTTGCGTGATTACTGTAAAT
*
62413316 TTTGTGTGATTACTGTAAA
1 TTTGCGTGATTACTGTAAA
62413335 CTGTGTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (20 bp):
TTTGCGTGATTACTGTAAAT
Found at i:62418093 original size:20 final size:20
Alignment explanation
Indices: 62418068--62418108 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
62418058 ATAAGAACAC
62418068 AATTTACAATAATCACACAA
1 AATTTACAATAATCACACAA
62418088 AATTTACAATAATCACACAA
1 AATTTACAATAATCACACAA
62418108 A
1 A
62418109 CAAATGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (20 bp):
AATTTACAATAATCACACAA
Found at i:62419547 original size:2 final size:2
Alignment explanation
Indices: 62419540--62419577 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
62419530 TGAAGTTAGT
62419540 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62419578 CACGTACATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62425761 original size:6 final size:6
Alignment explanation
Indices: 62425753--62425792 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
62425743 GTCATTAATG
*
62425753 TTGCCG TTGCCT TTGCCT TTG-CT GTTGCCT TTGCCT TTGC
1 TTGCCT TTGCCT TTGCCT TTGCCT -TTGCCT TTGCCT TTGC
62425793 ATGCGATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 2 0.06
6 27 0.87
7 2 0.06
ACGTcount: A:0.00, C:0.30, G:0.23, T:0.47
Consensus pattern (6 bp):
TTGCCT
Found at i:62425774 original size:18 final size:18
Alignment explanation
Indices: 62425753--62425792 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
62425743 GTCATTAATG
62425753 TTGCCGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
*
62425771 TTGCTGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
62425789 TTGC
1 TTGC
62425793 ATGCGATGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.23, T:0.47
Consensus pattern (18 bp):
TTGCCGTTGCCTTTGCCT
Found at i:62427136 original size:29 final size:28
Alignment explanation
Indices: 62427090--62427166 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
62427080 GTCAGTATTT
62427090 AATTAATTTTT-AAAATTAAAAAACATAA
1 AATT-ATTTTTAAAAATTAAAAAACATAA
* * *
62427118 AATCTATTTTTAAAAATTAATAATCATTA
1 AAT-TATTTTTAAAAATTAAAAAACATAA
62427147 AATTA---TTAAAAATTAAAAAA
1 AATTATTTTTAAAAATTAAAAAA
62427167 ATTATTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 13 0.31
28 11 0.26
29 18 0.43
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
AATTATTTTTAAAAATTAAAAAACATAA
Found at i:62427746 original size:16 final size:17
Alignment explanation
Indices: 62427718--62427749 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
62427708 ACAATAATAA
62427718 TATATATTTTTTAATTT
1 TATATATTTTTTAATTT
62427735 TATATA-TTTTTAATT
1 TATATATTTTTTAATT
62427750 AGTATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATATATTTTTTAATTT
Found at i:62427755 original size:17 final size:17
Alignment explanation
Indices: 62427718--62427755 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
62427708 ACAATAATAA
*
62427718 TATATATTTTTTAATTT
1 TATATATTTTTTAATTG
62427735 TATATA-TTTTTAATTAG
1 TATATATTTTTTAATT-G
62427752 TATA
1 TATA
62427756 ATAATGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TATATATTTTTTAATTG
Found at i:62431099 original size:3 final size:3
Alignment explanation
Indices: 62431091--62431138 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
62431081 ACCTAAAATC
62431091 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62431139 AATATAAGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:62431692 original size:3 final size:3
Alignment explanation
Indices: 62431684--62431717 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
62431674 CTAACATATC
* *
62431684 TGA TGA TGA TGA TGG TGA TAA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
62431718 CAACACCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:62435330 original size:2 final size:2
Alignment explanation
Indices: 62435323--62435367 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
62435313 GGTATGTTAT
62435323 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62435365 TA T
1 TA T
62435368 TACATTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62439073 original size:25 final size:26
Alignment explanation
Indices: 62439044--62439096 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
62439034 TCCAAGCCTT
62439044 AAAATT-TTTAAGTCTGATTTAAGAA
1 AAAATTATTTAAGTCTGATTTAAGAA
* * *
62439069 AAAATTATTTAGGTTTGGTTTAAGAA
1 AAAATTATTTAAGTCTGATTTAAGAA
62439095 AA
1 AA
62439097 CCGTGATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.40
Consensus pattern (26 bp):
AAAATTATTTAAGTCTGATTTAAGAA
Found at i:62445775 original size:28 final size:29
Alignment explanation
Indices: 62445744--62445801 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
62445734 AATGCTATGT
62445744 AAATT-AATTATCCTCAATT-AATTTTAAA
1 AAATTAAATTATCCT-AATTAAATTTTAAA
*
62445772 AAATTAAATTATTCTAATTAAAATTTTAAA
1 AAATTAAATTATCCTAATT-AAATTTTAAA
62445802 GTGTTAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 9 0.35
29 8 0.31
30 9 0.35
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATTAAATTATCCTAATTAAATTTTAAA
Found at i:62447840 original size:30 final size:31
Alignment explanation
Indices: 62447790--62447850 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
62447780 TTACAAATTT
*
62447790 ATCATTAAAATATTTGAAAGTTTTTATTTAA
1 ATCAGTAAAATATTTGAAAGTTTTTATTTAA
*
62447821 ATCAGTAAATTATTT-AAAGTTTTTATTTAA
1 ATCAGTAAAATATTTGAAAGTTTTTATTTAA
62447851 GTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (31 bp):
ATCAGTAAAATATTTGAAAGTTTTTATTTAA
Found at i:62449491 original size:2 final size:2
Alignment explanation
Indices: 62449484--62449510 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62449474 TAAAATGATA
62449484 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
62449511 CGTGGGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62450372 original size:173 final size:174
Alignment explanation
Indices: 62450081--62450416 Score: 489
Period size: 173 Copynumber: 1.9 Consensus size: 174
62450071 CGATATCTAG
* * * * * *
62450081 AATTACTTATAATGTCTCCCCAACCTATAAATAGTAGAAGAATGCGCTTCAACATACTCGAACCC
1 AATTACTCATAATCTCTCCCCAACCTATAAATAGGAGAAGAATACGCTCCAACACACTCGAACCC
*
62450146 ACGTTCTCCTGCATTGGCAACAATGCTCATGTCAATCAAGTTAAGACTCAATCGACATAA-ATAT
66 ACGTTCTCCTACATTGGCAACAATGCTCATGTCAATCAAGTTAAGACTCAATCGACATAAGATAT
* * *
62450210 ATATTATATAAGAGTCTATTTCACAAATGTTATATGATGTTTAT
131 ATATTATATAAAAGTCCATTTCACAAAAGTTATATGATGTTTAT
* * *
62450254 AATTACTCATAATCTCTCCCCAAGCTATAAATAGGAGGATAATACGCTCCAACACACTCGAACCC
1 AATTACTCATAATCTCTCCCCAACCTATAAATAGGAGAAGAATACGCTCCAACACACTCGAACCC
* *
62450319 ACG-TCTTCCTACATTTGCAACAATGCTCATGTCAATCGAA-TTAAGATTCAATCGACATAAGTA
66 ACGTTC-TCCTACATTGGCAACAATGCTCATGTCAATC-AAGTTAAGACTCAATCGACATAAG-A
62450382 TATATATTATATAAAAGTCCATTTCACAAAAGTTA
128 TATATATTATATAAAAGTCCATTTCACAAAAGTTA
62450417 AAATCGAGAG
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
172 2 0.01
173 107 0.74
174 2 0.01
175 33 0.23
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (174 bp):
AATTACTCATAATCTCTCCCCAACCTATAAATAGGAGAAGAATACGCTCCAACACACTCGAACCC
ACGTTCTCCTACATTGGCAACAATGCTCATGTCAATCAAGTTAAGACTCAATCGACATAAGATAT
ATATTATATAAAAGTCCATTTCACAAAAGTTATATGATGTTTAT
Found at i:62450749 original size:19 final size:18
Alignment explanation
Indices: 62450706--62450767 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
62450696 TCCAAAGTTT
* *
62450706 TATAAATATATATAAAT-
1 TATAAAAATATAAAAATA
*
62450723 TA-AAAAATTTAAAAGAT-
1 TATAAAAATATAAAA-ATA
62450740 TACTAAAAATATAAAAATA
1 TA-TAAAAATATAAAAATA
62450759 TATAAAAAT
1 TATAAAAAT
62450768 GCTAATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
16 9 0.24
17 6 0.16
18 9 0.24
19 13 0.35
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TATAAAAATATAAAAATA
Found at i:62450763 original size:10 final size:9
Alignment explanation
Indices: 62450705--62450767 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 9
62450695 TTCCAAAGTT
*
62450705 TTATAAATA
1 TTATAAAAA
*
62450714 -TATATAAA
1 TTATAAAAA
62450722 TTA-AAAAA
1 TTATAAAAA
62450730 TT-TAAAAGA
1 TTATAAAA-A
62450739 TTACTAAAAA
1 TTA-TAAAAA
62450749 -TATAAAAA
1 TTATAAAAA
62450757 TATATAAAAA
1 T-TATAAAAA
62450767 T
1 T
62450768 GCTAATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
8 22 0.50
9 7 0.16
10 10 0.23
11 5 0.11
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TTATAAAAA
Done.