Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 169 of 187
Found at i:50205433 original size:19 final size:19
Alignment explanation
Indices: 50205408--50205459 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
50205398 TTTAAGATTT
50205408 TTTTAACTTGATTGAAA-A
1 TTTTAACTTGATTGAAACA
**
50205426 TGTTTAACTCAATTGAAACCA
1 T-TTTAACTTGATTGAAA-CA
50205447 TTTTAACTTGATT
1 TTTTAACTTGATT
50205460 TTATCATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 10 0.37
21 2 0.07
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (19 bp):
TTTTAACTTGATTGAAACA
Found at i:50211958 original size:48 final size:47
Alignment explanation
Indices: 50211883--50212076 Score: 193
Period size: 48 Copynumber: 4.1 Consensus size: 47
50211873 CACAAATATT
* * *
50211883 TGGACAGCAA-TAA-CAAC-ATTCGGACAGCATTGATTTGTACAAAAA
1 TGGACAGCAATTAAGCACCAATTCGGACAACATT-ATATGTACAAAAA
* *
50211928 TGGACAGCAATTAAGCACCAATTCGGACAGCATTA-ATATACTAAAAA
1 TGGACAGCAATTAAGCACCAATTCGGACAACATTATATGTAC-AAAAA
* *
50211975 TGGACAGCAATTAAGCATCAATTTGGACAACATTAATATGCT-CAAAAA
1 TGGACAGCAATTAAGCACCAATTCGGACAACATT-ATATG-TACAAAAA
* * * *
50212023 TGGACAGCATTTAAGCACTAATTTGGACAACATTA-ATATACTAAAAAA
1 TGGACAGCAATTAAGCACCAATTCGGACAACATTATATGTAC--AAAAA
50212071 TGGACA
1 TGGACA
50212077 ACATCTTATC
Statistics
Matches: 128, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
45 11 0.09
46 10 0.08
47 41 0.32
48 62 0.48
49 3 0.02
50 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (47 bp):
TGGACAGCAATTAAGCACCAATTCGGACAACATTATATGTACAAAAA
Found at i:50211983 original size:47 final size:48
Alignment explanation
Indices: 50211923--50212076 Score: 229
Period size: 48 Copynumber: 3.2 Consensus size: 48
50211913 TGATTTGTAC
*
50211923 AAAAATGGACAGCAATTAAGCACCAATTCGGACAGCATTAATATACT-
1 AAAAATGGACAGCAATTAAGCACCAATTCGGACAACATTAATATACTA
* * * *
50211970 AAAAATGGACAGCAATTAAGCATCAATTTGGACAACATTAATATGCTC
1 AAAAATGGACAGCAATTAAGCACCAATTCGGACAACATTAATATACTA
* * *
50212018 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATACTA
1 AAAAATGGACAGCAATTAAGCACCAATTCGGACAACATTAATATACTA
50212066 AAAAATGGACA
1 AAAAATGGACA
50212077 ACATCTTATC
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 43 0.44
48 54 0.56
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.23
Consensus pattern (48 bp):
AAAAATGGACAGCAATTAAGCACCAATTCGGACAACATTAATATACTA
Found at i:50212027 original size:25 final size:25
Alignment explanation
Indices: 50211998--50212080 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 25
50211988 AGCATCAATT
50211998 TGGACAACATTAATATGCTCAAAAA
1 TGGACAACATTAATATGCTCAAAAA
* * * * **
50212023 TGGACAGCATT--TAAGCACTAATT
1 TGGACAACATTAATATGCTCAAAAA
* *
50212046 TGGACAACATTAATATACTAAAAAA
1 TGGACAACATTAATATGCTCAAAAA
50212071 TGGACAACAT
1 TGGACAACAT
50212081 CTTATCATCA
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
23 17 0.40
25 25 0.60
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (25 bp):
TGGACAACATTAATATGCTCAAAAA
Found at i:50212065 original size:23 final size:23
Alignment explanation
Indices: 50211994--50212066 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
50211984 ATTAAGCATC
*
50211994 AATTTGGACAACATTAATATGCT
1 AATTTGGACAACATTAATATACT
** * **
50212017 CAAAAATGGACAGCATTTAA-GCACT
1 --AATTTGGACAACA-TTAATATACT
50212042 AATTTGGACAACATTAATATACT
1 AATTTGGACAACATTAATATACT
50212065 AA
1 AA
50212067 AAAATGGACA
Statistics
Matches: 35, Mismatches: 11, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
22 4 0.11
23 15 0.43
25 12 0.34
26 4 0.11
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (23 bp):
AATTTGGACAACATTAATATACT
Found at i:50216165 original size:16 final size:16
Alignment explanation
Indices: 50216122--50216168 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
50216112 ATGATAATTT
* *
50216122 TTAAATGTTAAATAAG
1 TTAATTGTTAATTAAG
*
50216138 -TAATTTGATAATTAAG
1 TTAA-TTGTTAATTAAG
50216154 TTAATTGTTAATTAA
1 TTAATTGTTAATTAA
50216169 ACAAAAGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.12
16 19 0.76
17 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (16 bp):
TTAATTGTTAATTAAG
Found at i:50216980 original size:40 final size:40
Alignment explanation
Indices: 50216936--50217077 Score: 185
Period size: 40 Copynumber: 3.5 Consensus size: 40
50216926 TTATTGTACG
*
50216936 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * *
50216976 AATGCACATATGTGCCCCTATTTTTACTTCGGTACCCCAA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
50217016 AATACACATACATGCCCCTGTTTGTACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
50217056 AATGCGCTTTCGTGCCCCTGTT
1 AATGCACATACGTGCCCCTGTT
50217078 AAAACTCGGG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:50227085 original size:22 final size:21
Alignment explanation
Indices: 50227056--50227099 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
50227046 CGTTTTATTC
*
50227056 AATTTAAACTAAAAACTAAAT
1 AATTTAAAATAAAAACTAAAT
* *
50227077 AATTCTAAAATAAACATTAAAT
1 AATT-TAAAATAAAAACTAAAT
50227099 A
1 A
50227100 CGTAAAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTTAAAATAAAAACTAAAT
Found at i:50232026 original size:14 final size:14
Alignment explanation
Indices: 50232009--50232036 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50231999 CGGGTTTTAT
50232009 TTTGAGATAAGTGA
1 TTTGAGATAAGTGA
50232023 TTTGAGATAAGTGA
1 TTTGAGATAAGTGA
50232037 ACCGTAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
TTTGAGATAAGTGA
Found at i:50232896 original size:12 final size:12
Alignment explanation
Indices: 50232879--50232903 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50232869 TGTCTGATTT
50232879 GTTGAATATGTA
1 GTTGAATATGTA
50232891 GTTGAATATGTA
1 GTTGAATATGTA
50232903 G
1 G
50232904 AGCGGTTACC
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:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (12 bp):
GTTGAATATGTA
Found at i:50237151 original size:19 final size:18
Alignment explanation
Indices: 50237108--50237153 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
50237098 GATTTAAAAA
50237108 TCTTTTTTCTGAAATGCT
1 TCTTTTTTCTGAAATGCT
50237126 TCTTTTTTCTGAAATGCT
1 TCTTTTTTCTGAAATGCT
*
50237144 TTTTTTTTCT
1 TCTTTTTTCT
50237154 AGTGGGGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.63
Consensus pattern (18 bp):
TCTTTTTTCTGAAATGCT
Found at i:50241050 original size:17 final size:18
Alignment explanation
Indices: 50241028--50241073 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
50241018 AATTTTTTTA
50241028 ATATTTTATATATATAT-
1 ATATTTTATATATATATG
50241045 ATATTTTATAT-TATATG
1 ATATTTTATATATATATG
*
50241062 A-ATTTTTTATAT
1 ATATTTTATATAT
50241074 TACTCTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATATTTTATATATATATG
Found at i:50241069 original size:18 final size:18
Alignment explanation
Indices: 50241028--50241075 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
50241018 AATTTTTTTA
50241028 ATATTTTATA-TATATAT
1 ATATTTTATATTATATAT
50241045 ATATTTTATATTATATGA-
1 ATATTTTATATTATAT-AT
*
50241063 ATTTTTTATATTA
1 ATATTTTATATTA
50241076 CTCTTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 10 0.36
18 17 0.61
19 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
ATATTTTATATTATATAT
Found at i:50241108 original size:16 final size:15
Alignment explanation
Indices: 50241084--50241118 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
50241074 TACTCTTTTG
*
50241084 AAATTTAAAATATATA
1 AAATCTAAAATAT-TA
50241100 AAATCTAAAATATTA
1 AAATCTAAAATATTA
50241115 AAAT
1 AAAT
50241119 TTTATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATCTAAAATATTA
Found at i:50241306 original size:17 final size:17
Alignment explanation
Indices: 50241284--50241342 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
50241274 AAATTAAAAA
50241284 TTTATAAACTTTGATAT
1 TTTATAAACTTTGATAT
* *
50241301 TTTATAAAATCTGATAT
1 TTTATAAACTTTGATAT
* *
50241318 TTTAT-ACCTTTTTATAT
1 TTTATAAAC-TTTGATAT
50241335 TTTATAAA
1 TTTATAAA
50241343 AATTATATCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTATAAACTTTGATAT
Found at i:50245016 original size:11 final size:11
Alignment explanation
Indices: 50245000--50245026 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50244990 TTAATTGGTA
50245000 TGTTTGAAAAG
1 TGTTTGAAAAG
50245011 TGTTTGAAAAG
1 TGTTTGAAAAG
50245022 TGTTT
1 TGTTT
50245027 AGGTCTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (11 bp):
TGTTTGAAAAG
Found at i:50245711 original size:47 final size:47
Alignment explanation
Indices: 50245658--50245754 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
50245648 AGTAAAATAT
50245658 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
*
50245705 TAAGTGAGGTAACAATATATTCCTACATTGAAATAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
50245752 TAA
1 TAA
50245755 TCTTGCAAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (47 bp):
TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
Found at i:50249913 original size:18 final size:18
Alignment explanation
Indices: 50249885--50249920 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
50249875 CAGAATGCTA
50249885 ATTTGGTATCGAT-TTTT
1 ATTTGGTATCGATATTTT
50249902 ATTTGAGTATCGATATTTT
1 ATTTG-GTATCGATATTTT
50249921 TTTAACTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.22, C:0.06, G:0.17, T:0.56
Consensus pattern (18 bp):
ATTTGGTATCGATATTTT
Found at i:50252726 original size:12 final size:13
Alignment explanation
Indices: 50252709--50252737 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
50252699 CTCATACATG
50252709 AATAAATAAA-GC
1 AATAAATAAATGC
50252721 AATAAATAAATGC
1 AATAAATAAATGC
50252734 AATA
1 AATA
50252738 GTTATAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:50258467 original size:33 final size:33
Alignment explanation
Indices: 50258429--50258505 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
50258419 CTATCTATTC
* *
50258429 TATGTTTACTATCCCAACAAATTATCT-TTGTTT
1 TATGTTTACTATACCAACAAACTATCTCTT-TTT
* **
50258462 TATGTTTACCATACCAATGAACTATCTCTTTTT
1 TATGTTTACTATACCAACAAACTATCTCTTTTT
*
50258495 TGTGTTTACTA
1 TATGTTTACTA
50258506 CTCCTATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 34 0.94
34 2 0.06
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.48
Consensus pattern (33 bp):
TATGTTTACTATACCAACAAACTATCTCTTTTT
Found at i:50258528 original size:18 final size:18
Alignment explanation
Indices: 50258501--50258537 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50258491 TTTTTGTGTT
*
50258501 TACTACTCCTATGAACTA
1 TACTACTCCTACGAACTA
*
50258519 TACTATTCCTACGAACTA
1 TACTACTCCTACGAACTA
50258537 T
1 T
50258538 CTCCATGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (18 bp):
TACTACTCCTACGAACTA
Found at i:50260463 original size:20 final size:23
Alignment explanation
Indices: 50260432--50260476 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
50260422 TTGCTTGTAC
50260432 TTAAGTACATTTT-GTT-GCATT
1 TTAAGTACATTTTAGTTAGCATT
50260453 TTAAG-ACATTTTAGTTAGCATT
1 TTAAGTACATTTTAGTTAGCATT
50260475 TT
1 TT
50260477 TAATATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (23 bp):
TTAAGTACATTTTAGTTAGCATT
Found at i:50270596 original size:15 final size:15
Alignment explanation
Indices: 50270572--50270606 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
50270562 CACTCTCTCA
*
50270572 TTTTATTAACCCAAT
1 TTTTACTAACCCAAT
50270587 TTTTACTAACCCAAT
1 TTTTACTAACCCAAT
50270602 TTTTA
1 TTTTA
50270607 GGATGTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTACTAACCCAAT
Found at i:50287506 original size:50 final size:50
Alignment explanation
Indices: 50287339--50287573 Score: 188
Period size: 50 Copynumber: 4.6 Consensus size: 50
50287329 GGTAAAGAGA
* ** **
50287339 TCCCATGTAAGACAATGTCTGGGACATGGCATTGGTGTCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TGG-G-CA--CCGA-TATGAGAAC
* * * * * * **
50287395 TCCTATGTAAGACCAGGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
***
50287445 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
* * * **
50287495 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--G-TACAAGAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAG-AAC
50287543 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 -TCCCATGTAAGACCATGTCTGGGACATGGC
50287574 TTTGCCATGT
Statistics
Matches: 147, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
47 4 0.03
48 4 0.03
49 28 0.19
50 78 0.53
51 2 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 26 0.18
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
Found at i:50287565 original size:49 final size:49
Alignment explanation
Indices: 50287452--50287573 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
50287442 AGGTCCCCCA
* *
50287452 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATGGGCA-CGACAAGAGAACTCCCATG
* * *
50287502 TAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AACATCCCATG
1 TAAGACCATGTCTGGGACATGGCATGGGCACG-ACAAGAGAAC-TCCCATG
50287551 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
50287574 TTTGCCATGT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 4 0.06
49 32 0.51
50 27 0.43
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATGGGCACGACAAGAGAACTCCCATG
Found at i:50294720 original size:14 final size:14
Alignment explanation
Indices: 50294699--50294732 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
50294689 TGGTATGGGT
50294699 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
50294712 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
50294726 TTATAGG
1 TTATAGG
50294733 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:50294886 original size:23 final size:24
Alignment explanation
Indices: 50294860--50294907 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
50294850 AAATGAAAGT
50294860 TTAAAGAACATAAAA-GAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
** *
50294883 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
50294907 T
1 T
50294908 AGGGGGATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (24 bp):
TTAAAGAACATAAAACGAAAAAAA
Found at i:50301977 original size:42 final size:43
Alignment explanation
Indices: 50301869--50302033 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
50301859 AGCTCGTACA
* * * *
50301869 ATACCAACGTCCCAGAC-TAGGTCTTACATGTAATCAAATACCG
1 ATACCAATGTCCCAGACAT-GGTCTTACACGAAATCATATACCG
* * *
50301912 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATACCAATGTCCCAGACATGGTCTTACACGAAATCATATACCG
* * * *
50301954 ATACCAATGTCCCAGACATGGTCTTACGCTTAAATC-TCAAATCG
1 ATACCAATGTCCCAGACATGGTCTTACAC-GAAATCAT-ATACCG
* * *
50301998 ATATCAATGTCCCAGGCGTGGTCTTACACGAAATCA
1 ATACCAATGTCCCAGACATGGTCTTACACGAAATCA
50302034 CATATCAGAA
Statistics
Matches: 99, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 28 0.28
43 44 0.44
44 27 0.27
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATACCAATGTCCCAGACATGGTCTTACACGAAATCATATACCG
Found at i:50308789 original size:13 final size:13
Alignment explanation
Indices: 50308771--50308796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50308761 TTGAATTCTT
50308771 ACCAAAACAATTA
1 ACCAAAACAATTA
50308784 ACCAAAACAATTA
1 ACCAAAACAATTA
50308797 TGATACATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCAAAACAATTA
Found at i:50309620 original size:42 final size:43
Alignment explanation
Indices: 50309541--50309692 Score: 166
Period size: 43 Copynumber: 3.5 Consensus size: 43
50309531 TCCTAGACGA
* * * *
50309541 GGTCTTACATGTAATCAAATATCGATGCCAATATCCCAAACAG
1 GGTCTTACACGAAATCATATATCGATGCCAATATCCCAGACAG
* *
50309584 GGTCTTACACGAAATCATATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCATATATCGATGCCAATATCCCAGACAG
* *
50309626 GGTCTTACACGTAAATC-TCAAATCGATGCCAACATCCCAGAC-G
1 GGTCTTACACG-AAATCAT-ATATCGATGCCAATATCCCAGACAG
* *
50309669 TGGTCTTACACGGAATCACATATC
1 -GGTCTTACACGAAATCATATATC
50309693 AGAATCCTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
42 30 0.33
43 33 0.36
44 28 0.31
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGAAATCATATATCGATGCCAATATCCCAGACAG
Found at i:50309674 original size:86 final size:85
Alignment explanation
Indices: 50309522--50309686 Score: 210
Period size: 86 Copynumber: 1.9 Consensus size: 85
50309512 AGCTCGTACA
* * *
50309522 ATGCCAACGTCCTAGACGAGGTCTTACATGTAATCAAATATCGATGCCAATATCCCAAACAGGGT
1 ATGCCAACGTCCCAGACGAGGTCTTACACGTAATCAAATATCGATGCCAACATCCCAAACAGGGT
50309587 CTTACACGAAATCATATACG
66 CTTACACGAAATCATATACG
* * *
50309607 ATGCCAATGTCCCAGAC-ATGGTCTTACACGTAAATCTCAA-ATCGATGCCAACATCCCAGAC-G
1 ATGCCAACGTCCCAGACGA-GGTCTTACACGT-AATC-AAATATCGATGCCAACATCCCAAACAG
*
50309669 TGGTCTTACACGGAATCA
63 -GGTCTTACACGAAATCA
50309687 CATATCAGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
84 1 0.01
85 27 0.39
86 39 0.57
87 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGAGGTCTTACACGTAATCAAATATCGATGCCAACATCCCAAACAGGGT
CTTACACGAAATCATATACG
Found at i:50316684 original size:15 final size:15
Alignment explanation
Indices: 50316664--50316692 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50316654 GATTACCGTG
50316664 TTATTTAATTTGTTT
1 TTATTTAATTTGTTT
50316679 TTATTTAATTTGTT
1 TTATTTAATTTGTT
50316693 GCTATGGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TTATTTAATTTGTTT
Found at i:50320843 original size:28 final size:29
Alignment explanation
Indices: 50320812--50320877 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
50320802 TACCATTAAA
*
50320812 GGCCCTTTTTTTTA-AATTTACCGAAATG
1 GGCCCTTTTTTTTATAATTTACAGAAATG
** * * *
50320840 GGCCCGGTATTTTATTATTTACAGGAATG
1 GGCCCTTTTTTTTATAATTTACAGAAATG
50320869 GGCCCTTTT
1 GGCCCTTTT
50320878 CCCCGAAAAC
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (29 bp):
GGCCCTTTTTTTTATAATTTACAGAAATG
Found at i:50321199 original size:11 final size:11
Alignment explanation
Indices: 50321169--50321243 Score: 78
Period size: 11 Copynumber: 6.7 Consensus size: 11
50321159 AAACTAATCC
50321169 TCTCTCAATTAT
1 TCTCTCAATT-T
*
50321181 TTTCTCAATTT
1 TCTCTCAATTT
*
50321192 TCTCTCAAATT
1 TCTCTCAATTT
*
50321203 ACTCTCAATTT
1 TCTCTCAATTT
*
50321214 GCTCTCAATTT
1 TCTCTCAATTT
* * *
50321225 CCTTTCAAATT
1 TCTCTCAATTT
50321236 TCTCTCAA
1 TCTCTCAA
50321244 ATCCATATTT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
11 43 0.83
12 9 0.17
ACGTcount: A:0.24, C:0.27, G:0.01, T:0.48
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:50322455 original size:7 final size:7
Alignment explanation
Indices: 50322443--50322477 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
50322433 AGCTAGTCGA
50322443 TTAGTAT
1 TTAGTAT
50322450 TTAGTAT
1 TTAGTAT
50322457 TTAGTAT
1 TTAGTAT
*
50322464 TTGGTAT
1 TTAGTAT
50322471 TTAGTAT
1 TTAGTAT
50322478 CATGTTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (7 bp):
TTAGTAT
Found at i:50323133 original size:18 final size:18
Alignment explanation
Indices: 50323096--50323133 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
50323086 TGTCAGGTGC
*
50323096 GTATCCTAGCCTCTTAAT
1 GTATCCTAACCTCTTAAT
50323114 GTATCCTAACC-CTTATAT
1 GTATCCTAACCTCTTA-AT
50323132 GT
1 GT
50323134 TTCTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCTCTTAAT
Found at i:50325199 original size:125 final size:125
Alignment explanation
Indices: 50324902--50325340 Score: 691
Period size: 125 Copynumber: 3.5 Consensus size: 125
50324892 CAAACATGCT
* * *
50324902 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
* * *
50324967 GAAGCGTTTTTTATACTATTCACTTAGAAACGTCAACTCGAAATTA-TTTTTCAGAACCT
66 GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
* * *
50325026 ACTGTAGCAAAAGCACGTCCACGTGGGCTCGATTTCAGAAATTATTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
* * *
50325091 GAAGCATTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTAAGGACCA
66 GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
* *
50325151 ACTGTAGCAAAAGTGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
50325216 GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
66 GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
* * * * * *
50325276 ACTGTAGCAAAAACGCATCCACGTGGGCACGATTTAAGAAATTCTTCTAATAAAGCATCATGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
50325341 TGATTTTATC
Statistics
Matches: 287, Mismatches: 27, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
124 102 0.36
125 185 0.64
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
GAAGCGTTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCA
Found at i:50325505 original size:22 final size:22
Alignment explanation
Indices: 50325465--50325507 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
50325455 ATTTCTCTAA
**
50325465 AACCCTAAAAACCTTAAACCTT
1 AACCCTAAAAACCCAAAACCTT
50325487 AACCCTAAAAACCCAAAACCT
1 AACCCTAAAAACCCAAAACCT
50325508 AACGTGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (22 bp):
AACCCTAAAAACCCAAAACCTT
Found at i:50327440 original size:76 final size:73
Alignment explanation
Indices: 50327299--50327574 Score: 261
Period size: 76 Copynumber: 3.7 Consensus size: 73
50327289 TAAAAAAAAT
* *
50327299 TATTGTATTTTACATCAAATAATATAATTATTTACAATCTACAAAAAAAATTTAAAAATTGTTTG
1 TATTGTATTTTACATC-AATAATATACTTATTTACAATCTACGAAAAAAA-TTAAAAATTGTTTG
* *
50327364 TTTTATATTC
64 TATTGTATTC
* * * **
50327374 TATTGTATTTTATATCAATAATTTATACTTATTTACAATCTATGAAAACAATTAAAGTTTTGTTT
1 TATTGTATTTTACATCAATAA--TATACTTATTTACAATCTACGAAAAAAATTAAA-AATTGTTT
50327439 GTATTGTATTC
63 GTATTGTATTC
* * * *
50327450 TATCGTATGCCTTT---TCAATAATATACTTATTTACAATCAACGAAAAAAATGAAAAAAACTGT
1 TATTGTAT---TTTACATCAATAATATACTTATTTACAATCTACGAAAAAAAT--TAAAAATTGT
*
50327512 TTATATTGTATTC
61 TTGTATTGTATTC
* * * *
50327525 TACTGTACTTTACATCAATAATATATACTTATTTACAATTTACCAAAAAA
1 TATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAAAA
50327575 TGAGAAGTAA
Statistics
Matches: 164, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
72 3 0.02
74 31 0.19
75 45 0.27
76 57 0.35
77 25 0.15
79 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (73 bp):
TATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAAAATTAAAAATTGTTTGTA
TTGTATTC
Found at i:50331266 original size:26 final size:25
Alignment explanation
Indices: 50331208--50331269 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
50331198 TTTCTCACTC
*
50331208 CAATTTTACCCTACTAAAATTTTGA
1 CAATTTTACCCTACTAAAATTTTAA
* * **
50331233 TAAATTTACCCTTGGTAAAATTTTAA
1 CAATTTTACCC-TACTAAAATTTTAA
50331259 CAATTTTACCC
1 CAATTTTACCC
50331270 CCAATAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (25 bp):
CAATTTTACCCTACTAAAATTTTAA
Found at i:50335342 original size:27 final size:28
Alignment explanation
Indices: 50335283--50335342 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
50335273 TCTTAGGTTA
* * *
50335283 TGCCATGAAGGCATTCCTTTTCAAATAT
1 TGCCATGAAGACATTCCTTTACAAAGAT
* *
50335311 AGCCATGAAGAC-TTCCTTTACAGAGAT
1 TGCCATGAAGACATTCCTTTACAAAGAT
50335338 TGCCA
1 TGCCA
50335343 CAAAGGCTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (28 bp):
TGCCATGAAGACATTCCTTTACAAAGAT
Found at i:50337086 original size:21 final size:21
Alignment explanation
Indices: 50337060--50337099 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
50337050 GAAAATTGCT
50337060 CCTAAAAACAAGATTTTCTTC
1 CCTAAAAACAAGATTTTCTTC
50337081 CCTAAAAACAAGATTTTCT
1 CCTAAAAACAAGATTTTCT
50337100 AAGTTTCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (21 bp):
CCTAAAAACAAGATTTTCTTC
Found at i:50353139 original size:57 final size:57
Alignment explanation
Indices: 50353044--50353194 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 57
50353034 GGATTTATCT
* * * * * **
50353044 CTTACATTTCTAGAGTTTTGCTACAAAGGTTGTTCTTTATGAGGTTCACCACAAAGG
1 CTTACCTTTCTAGAGTTCTGCTACAAAGGCTATCCTTTAACAGGTTCACCACAAAGG
* * ** * *
50353101 CTTACCTTTTTAGAGTTCTGCTACAATGGCTATCCTTTAACAGGTTTGCCATAATGG
1 CTTACCTTTCTAGAGTTCTGCTACAAAGGCTATCCTTTAACAGGTTCACCACAAAGG
* * * * *
50353158 CTTACCTTTCCAAAGTTTTGCGACAAAGGCTTTCCTT
1 CTTACCTTTCTAGAGTTCTGCTACAAAGGCTATCCTT
50353195 CTCCTAGTGA
Statistics
Matches: 74, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
57 74 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (57 bp):
CTTACCTTTCTAGAGTTCTGCTACAAAGGCTATCCTTTAACAGGTTCACCACAAAGG
Found at i:50353386 original size:54 final size:53
Alignment explanation
Indices: 50353305--50353411 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 53
50353295 CCTTCCTTAA
*
50353305 TTTTTTTCATATGATGCCATAACCCACCAGTTACAGTCTTACATGATATGGTC
1 TTTTTTTCATATGATGCCATAACCCACCAATTACAGTCTTACATGATATGGTC
* * **
50353358 TTTTTTCTCATATGGTTCCATAACCCACCAATTATGGTCTTACATGATATGGTC
1 TTTTTT-TCATATGATGCCATAACCCACCAATTACAGTCTTACATGATATGGTC
50353412 CTTCAGTGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 6 0.12
54 42 0.88
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.39
Consensus pattern (53 bp):
TTTTTTTCATATGATGCCATAACCCACCAATTACAGTCTTACATGATATGGTC
Found at i:50355694 original size:12 final size:12
Alignment explanation
Indices: 50355677--50355701 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50355667 CACCATAGGT
50355677 AAGATCATGTCA
1 AAGATCATGTCA
50355689 AAGATCATGTCA
1 AAGATCATGTCA
50355701 A
1 A
50355702 TAATTTTGTC
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:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AAGATCATGTCA
Found at i:50363876 original size:19 final size:21
Alignment explanation
Indices: 50363848--50363886 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
50363838 AATCGGGTTT
50363848 GGGTTAGGC-TAAGTGGGCTG
1 GGGTTAGGCTTAAGTGGGCTG
*
50363868 GGGTT-GGCTTAATTGGGCT
1 GGGTTAGGCTTAAGTGGGCT
50363887 TAGTTCATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.13, C:0.10, G:0.46, T:0.31
Consensus pattern (21 bp):
GGGTTAGGCTTAAGTGGGCTG
Found at i:50371367 original size:51 final size:51
Alignment explanation
Indices: 50371307--50371541 Score: 267
Period size: 51 Copynumber: 4.6 Consensus size: 51
50371297 ATGAAACACG
* * *
50371307 TGTGTAGTACTGTGTGAAGGCTACTACATGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACA
* * * * ** *
50371358 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACA
* * * **
50371409 TGTGCAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATGATGAACACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACA
* * * * *
50371460 T-TGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGATTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-ATGGTCACA
50371510 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
50371542 ACGGATGATA
Statistics
Matches: 149, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
49 3 0.02
50 36 0.24
51 110 0.74
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACA
Found at i:50371508 original size:101 final size:102
Alignment explanation
Indices: 50371303--50371541 Score: 390
Period size: 101 Copynumber: 2.4 Consensus size: 102
50371293 ATCGATGAAA
* * **
50371303 CACGTGTGTAGTACTGTGTGAAGGCTACTACATGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGAACACATGTGTAGTAC
* *
50371368 TAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGATTTGGT
* *
50371405 CACGTGTGCAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATGATGAACACAT-TGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGAACACATGTGTAGTAC
50371469 TAAGTGAAGGCTACTATGTGTACCGAAAAGATTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGATTTGGT
*
50371506 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA
50371542 ACGGATGATA
Statistics
Matches: 127, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 77 0.61
102 50 0.39
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGAACACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGATTTGGT
Found at i:50373320 original size:13 final size:13
Alignment explanation
Indices: 50373302--50373330 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
50373292 ATGATATGTT
50373302 TATATAAAATTTG
1 TATATAAAATTTG
50373315 TATATAAAATTTG
1 TATATAAAATTTG
50373328 TAT
1 TAT
50373331 TCGTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TATATAAAATTTG
Found at i:50375031 original size:25 final size:25
Alignment explanation
Indices: 50375003--50375059 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
50374993 CTATAAACGG
* *
50375003 TAAGCTCCTTCGTGCTGAATAACAA
1 TAAGCTCCTCCGTGCTAAATAACAA
**
50375028 TAAGCTCCTCCGTGCTAAATAATGA
1 TAAGCTCCTCCGTGCTAAATAACAA
50375053 TAAGCTC
1 TAAGCTC
50375060 ATGCGAGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (25 bp):
TAAGCTCCTCCGTGCTAAATAACAA
Found at i:50375104 original size:24 final size:25
Alignment explanation
Indices: 50375053--50375104 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
50375043 TAAATAATGA
*
50375053 TAAGCTCATGCGAGCTGAGAATCAG
1 TAAGCTCATACGAGCTGAGAATCAG
* *
50375078 TAAGCTCATACGAGTTGA-AATCGG
1 TAAGCTCATACGAGCTGAGAATCAG
50375102 TAA
1 TAA
50375105 CCCTAATGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAGAATCAG
Found at i:50379255 original size:17 final size:18
Alignment explanation
Indices: 50379222--50379263 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
50379212 TGGAATAGTT
*
50379222 AATAA-CAATTTATATTC
1 AATAATCAATTTAAATTC
50379239 AATAATCAA-TTAAATTC
1 AATAATCAATTTAAATTC
*
50379256 CATAATCA
1 AATAATCA
50379264 CAAGTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAATCAATTTAAATTC
Found at i:50380467 original size:37 final size:37
Alignment explanation
Indices: 50380416--50380522 Score: 110
Period size: 38 Copynumber: 2.9 Consensus size: 37
50380406 AAGTTTATCT
50380416 GTAG-ATTTTACTCATTTGAGCTCCATTCAGTATAACA
1 GTAGAATTTT-CTCATTTGAGCTCCATTCAGTATAACA
*
50380453 GTAGAATTTTCTCATTTGAGCTTCACA-TCAATATAACA
1 GTAGAATTTTCTCATTTGAGC-TC-CATTCAGTATAACA
* * * * * *
50380491 ATAAAATTTGCTCGTTTGAGCTACTTTCAGTA
1 GTAGAATTTTCTCATTTGAGCTCCATTCAGTA
50380523 GAATCATTAG
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
36 1 0.02
37 21 0.36
38 34 0.59
39 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (37 bp):
GTAGAATTTTCTCATTTGAGCTCCATTCAGTATAACA
Found at i:50380555 original size:39 final size:39
Alignment explanation
Indices: 50380515--50380701 Score: 146
Period size: 40 Copynumber: 4.7 Consensus size: 39
50380505 TTTGAGCTAC
* *
50380515 TTTCAGTAGAATCATTAGGTATGGCTCGATAAAGCATAC-
1 TTTCAGTAGAATCAGTAGGTATAGCTCGA-AAAGCATACG
* * * *
50380554 TTTCAGTAGAATCAGTAGGTAAAGCTCG-ATAGCACACACA
1 TTTCAGTAGAATCAGTAGGTATAGCTCGAAAAG--CATACG
* * * *
50380594 TTTTAGTGGAATCGGTAGGTATGGCTCGAAAACGCATACG
1 TTTCAGTAGAATCAGTAGGTATAGCTCGAAAA-GCATACG
* * *
50380634 TTTCACTAGATTTAGTAGGTATAGCTC-AAAAGTACATACG
1 TTTCAGTAGAATCAGTAGGTATAGCTCGAAAAG--CATACG
* * * *
50380674 TTTCAGTAGATTCAATAGATATCGCTCG
1 TTTCAGTAGAATCAGTAGGTATAGCTCG
50380702 TCTGAACACC
Statistics
Matches: 115, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
37 3 0.03
38 1 0.01
39 33 0.29
40 75 0.65
41 2 0.02
42 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (39 bp):
TTTCAGTAGAATCAGTAGGTATAGCTCGAAAAGCATACG
Found at i:50380701 original size:80 final size:79
Alignment explanation
Indices: 50380515--50380701 Score: 196
Period size: 80 Copynumber: 2.4 Consensus size: 79
50380505 TTTGAGCTAC
* *
50380515 TTTCAGTAGAATCATTAGGTATGGCTCGATAAAGCATACTTTCAGTAGAATCAGTAGGTAAAGCT
1 TTTCAGTAGAATCAATAGGTATGGCTCGATAAAGCATACTTTCACTAGAATCAGTAGGTAAAGCT
* *
50380580 CGATAGCACACACA
66 CAAAAGCACACACA
* * ** * * *
50380594 TTTTAGTGGAATCGGTAGGTATGGCTCGA-AAACGCATACGTTTCACTAGATTTAGTAGGTATAG
1 TTTCAGTAGAATCAATAGGTATGGCTCGATAAA-GCATAC-TTTCACTAGAATCAGTAGGTAAAG
* * *
50380658 CTCAAAAGTACATACG
64 CTCAAAAGCACACACA
* * *
50380674 TTTCAGTAGATTCAATAGATATCGCTCG
1 TTTCAGTAGAATCAATAGGTATGGCTCG
50380702 TCTGAACACC
Statistics
Matches: 86, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
78 3 0.03
79 31 0.36
80 52 0.60
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (79 bp):
TTTCAGTAGAATCAATAGGTATGGCTCGATAAAGCATACTTTCACTAGAATCAGTAGGTAAAGCT
CAAAAGCACACACA
Found at i:50384714 original size:29 final size:29
Alignment explanation
Indices: 50384681--50384808 Score: 177
Period size: 29 Copynumber: 4.4 Consensus size: 29
50384671 TCATTGACTA
50384681 ATGAAAAGGGATAGCTTCGACTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* *
50384710 ATGAAAAGGGATAGCTTCAACTATCCAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
50384739 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* *
50384768 ATGAAAAGGGATAGCTTCGATTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
50384797 ATGAAAAGGGAT
1 ATGAAAAGGGAT
50384809 GGTGACGACC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
28 2 0.02
29 81 0.95
30 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:50384745 original size:58 final size:58
Alignment explanation
Indices: 50384681--50384837 Score: 201
Period size: 58 Copynumber: 2.7 Consensus size: 58
50384671 TCATTGACTA
* *
50384681 ATGAAAAGGGATAGCT-TCGACTATCGAATATGAAAAGGGATAGCTTCAACTATCCAAT
1 ATGAAAAGGGAT-GCTGACGACCATCGAATATGAAAAGGGATAGCTTCAACTATCCAAT
* * * * *
50384739 ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTCGATTATCGATT
1 ATGAAAAGGGATGCTGACGACCATCGAATATGAAAAGGGATAGCTTCAACTATCCAAT
* *
50384797 ATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAAGGAT
1 ATGAAAAGGGATGCTGACGACCATCGAA-TATGAAAAGGGAT
50384838 GGTGACGACC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
57 4 0.04
58 85 0.96
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (58 bp):
ATGAAAAGGGATGCTGACGACCATCGAATATGAAAAGGGATAGCTTCAACTATCCAAT
Found at i:50384776 original size:87 final size:87
Alignment explanation
Indices: 50384681--50384849 Score: 243
Period size: 87 Copynumber: 1.9 Consensus size: 87
50384671 TCATTGACTA
* *
50384681 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCT-TCAACTATCCAA-TATGAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGAT-GCTGACAACCAT-CAACTATGAA
*
50384744 AAGGGATGGTGACGACCATCGAAT
64 AAAGGATGGTGACGACCATCGAAT
* * * *
50384768 ATGAAAAGGGATAGCTTCGATTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGCTGACAACCATCAACTATGAAAA
50384833 AGGATGGTGACGACCAT
66 AGGATGGTGACGACCAT
50384850 TAGCTAAGAA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 5 0.07
87 68 0.93
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (87 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGCTGACAACCATCAACTATGAAAA
AGGATGGTGACGACCATCGAAT
Found at i:50384828 original size:29 final size:29
Alignment explanation
Indices: 50384738--50384937 Score: 163
Period size: 29 Copynumber: 6.9 Consensus size: 29
50384728 AACTATCCAA
50384738 TATGAAAAGGGATGGTGACGACCATCGAA-
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* * ** * *
50384767 TATGAAAAGGGATAGCT-TCGATTATCGAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAC
50384796 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * *
50384825 TATGAAAAAGGATGGTGACGACCATTAGC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * * *
50384854 TAAGAACAGGGATGGTGACGACCATCGAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * ** *
50384883 TAATAAAAAGGGAAGGTTTCGACCATCAAA
1 T-ATGAAAAGGGATGGTGACGACCATCAAC
* * *
50384913 TATG-AAAGGTATGGTTACAACCATC
1 TATGAAAAGGGATGGTGACGACCATC
50384938 GTTTAGCACA
Statistics
Matches: 133, Mismatches: 34, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
28 20 0.15
29 90 0.68
30 23 0.17
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.21
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:50384865 original size:87 final size:85
Alignment explanation
Indices: 50384676--50384919 Score: 240
Period size: 87 Copynumber: 2.8 Consensus size: 85
50384666 GGTGATCATT
* * * *
50384676 GACTAATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCAACTATCCAATAT
1 GACTAA-GAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGAT-GGTTCGACCAT-CAATAT
* *
50384741 GAAAAGGGATGGTGACGACCATC
63 GAAAAAGGATGGTGACGACCATA
* * * *
50384764 GAATATGAAAAGGGATAGCTTCGATTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATG
1 GACTAAGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGT-TCGACCATCAA-TATG
50384829 AAAAAGGATGGTGACGACCATTA
64 AAAAAGGATGGTGACGACCA-TA
* * * * * *
50384852 G-CTAAGAACAGGGAT-GGTGACGACCATCGATTAATAAAAAGGGAAGGTTTCGACCATCAAATA
1 GACTAAGAAAAGGGATAGCT-TCGACTATCGATT-ATGAAAAGGGATGG-TTCGACCATC-AATA
50384915 TGAAA
62 TGAAA
50384920 GGTATGGTTA
Statistics
Matches: 129, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
86 7 0.05
87 86 0.67
88 33 0.26
89 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (85 bp):
GACTAAGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTTCGACCATCAATATGAA
AAAGGATGGTGACGACCATA
Found at i:50384927 original size:58 final size:58
Alignment explanation
Indices: 50384681--50384938 Score: 186
Period size: 58 Copynumber: 4.4 Consensus size: 58
50384671 TCATTGACTA
* * * * * * * *
50384681 ATGAAAAGGGATAGCT-TCGACTATCGAATATGAAAAGGGATA-GCTTCAACTATCCAAT
1 ATGAAAAGGGAT-GGTGACGACCATCGAATATAAAAAGGGA-AGGTTTCGACCATCAAAT
* * ** * *
50384739 ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATA-GCTTCGATTATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGA-AGGTTTCGACCATCAAAT
* ** * **
50384797 ATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAA-GGATGGTGACGACCATTAGCT
1 ATGAAAAGGGATGGTGACGACCATCGAA-TAT-AAAAAGGGAAGGTTTCGACCATCAAAT
* * *
50384855 AAGAACAGGGATGGTGACGACCATCGATTAATAAAAAGGGAAGGTTTCGACCATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT-ATAAAAAGGGAAGGTTTCGACCATCAAAT
* * *
50384914 ATG-AAAGGTATGGTTACAACCATCG
1 ATGAAAAGGGATGGTGACGACCATCG
50384939 TTTAGCACAC
Statistics
Matches: 161, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
57 4 0.02
58 133 0.83
59 24 0.15
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGACGACCATCGAATATAAAAAGGGAAGGTTTCGACCATCAAAT
Found at i:50387605 original size:50 final size:50
Alignment explanation
Indices: 50387476--50387713 Score: 171
Period size: 50 Copynumber: 4.7 Consensus size: 50
50387466 GATAATAACA
* * *
50387476 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTA-C--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-G-TTCTTATACCGG
* ** ** *
50387525 TGACAATTTCATAACCCAGATATGGTCTTACATGGGAGTTCTTATACCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTATACCGG
* * ** *
50387575 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGAACCTCTCAT-CTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-AGTTCTTATAC-CGG
* ** * **
50387625 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTAT-A-C-C---GG
50387681 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
50387714 AGGATCTCAT
Statistics
Matches: 151, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
47 6 0.04
48 2 0.01
49 34 0.23
50 71 0.47
51 3 0.02
53 3 0.02
56 32 0.21
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTATACCGG
Found at i:50396330 original size:50 final size:50
Alignment explanation
Indices: 50396276--50396371 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
50396266 AGTCCTCATC
* * * * *
50396276 TCGGTACCCATGCCATGTCCTAGATATGGTCTTACAGGGGACCTCTAATG
1 TCGGTACCAACGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTAATG
* *
50396326 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
1 TCGGTACCAACGCCATGTCCCAGACATGGTCTTACAGGAGACCTCT
50396372 CATAACCTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TCGGTACCAACGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTAATG
Found at i:50407526 original size:29 final size:29
Alignment explanation
Indices: 50407424--50407816 Score: 190
Period size: 29 Copynumber: 13.5 Consensus size: 29
50407414 TATCAGCGAT
* * * *
50407424 CATCGACTAATGAAAAGGGATAACTTCAAT
1 CATCGAAT-ATGAAAAGGGATAGCTTCGAC
* * *
50407454 TATCGAATATG-AAAGCGGATTGCTTCGGC
1 CATCGAATATGAAAAG-GGATAGCTTCGAC
* * *
50407483 TATCAAATATGAAAAGGGATAGCTTCGGC
1 CATCGAATATGAAAAGGGATAGCTTCGAC
* * * * *
50407512 TATCGATTATGAAAAGAGAT-GGTGACGAC
1 CATCGAATATGAAAAGGGATAGCT-TCGAC
50407541 CATC-AACTATGAAAAGGGATA--TTGACGAC
1 CATCGAA-TATGAAAAGGGATAGCTT--CGAC
50407570 CATC-AACTATGAAAAGGGATA--TTGACGAC
1 CATCGAA-TATGAAAAGGGATAGCTT--CGAC
50407599 CATCGAATATGAAAAGGGATAGCTTC-AGC
1 CATCGAATATGAAAAGGGATAGCTTCGA-C
* * * * *
50407628 TATCGATTCTGAAAAGGGAT-GGTGACGAC
1 CATCGAATATGAAAAGGGATAGCT-TCGAC
** * *
50407657 CATAAAATATGAAAAGAGAT-GGTGAT-GAC
1 CATCGAATATGAAAAGGGATAGCT--TCGAC
50407686 CATCGAATATGAAAAGGGATAGCTTC-AGC
1 CATCGAATATGAAAAGGGATAGCTTCGA-C
* * * * *
50407715 TATCGATTATAAAAAGGGAT-GGTGACGAC
1 CATCGAATATGAAAAGGGATAGCT-TCGAC
* * *
50407744 CATC-AACTATGAAAAGGGGT-GGTGACGAC
1 CATCGAA-TATGAAAAGGGATAGCT-TCGAC
* *
50407773 CATCGATTAATGAAAAGGGAT-GGTTCCGAC
1 CATCGAAT-ATGAAAAGGGATAGCTT-CGAC
50407803 CATCGAATATGAAA
1 CATCGAATATGAAA
50407817 CGGTATGGTT
Statistics
Matches: 291, Mismatches: 49, Indels: 47
0.75 0.13 0.12
Matches are distributed among these distances:
28 16 0.05
29 231 0.79
30 42 0.14
31 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATAGCTTCGAC
Found at i:50407546 original size:58 final size:58
Alignment explanation
Indices: 50407484--50407672 Score: 238
Period size: 58 Copynumber: 3.3 Consensus size: 58
50407474 TGCTTCGGCT
*
50407484 ATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGAGATGGTGACGACC
1 ATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACC
* * * * * **
50407542 ATCAACTATGAAAAGGGATA--TTGACGACCATCAACTATGAAAAGGGATATTGACGACC
1 ATCAAATATGAAAAGGGATAGCTT--CGGCTATCGATTATGAAAAGGGATGGTGACGACC
* * *
50407600 ATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTCTGAAAAGGGATGGTGACGACC
1 ATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACC
*
50407658 ATAAAATATGAAAAG
1 ATCAAATATGAAAAG
50407673 AGATGGTGAT
Statistics
Matches: 107, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
56 2 0.02
58 103 0.96
60 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (58 bp):
ATCAAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACC
Found at i:50407604 original size:87 final size:87
Alignment explanation
Indices: 50407540--50407836 Score: 346
Period size: 87 Copynumber: 3.4 Consensus size: 87
50407530 ATGGTGACGA
* ** **
50407540 CCATCAACTATGAAAAGGGATATTGACGACCATCAACTATGAAAAGGGATATTGACGACCATCGA
1 CCATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATCGA
50407605 ATATGAAAAGGGATAGCTTCAG
66 ATATGAAAAGGGATAGCTTCAG
* * * * * * *
50407627 CTATCGATTCTGAAAAGGGATGGTGACGACCATAAAATATGAAAAGAGATGGTGATGACCATCGA
1 CCATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATCGA
50407692 ATATGAAAAGGGATAGCTTCAG
66 ATATGAAAAGGGATAGCTTCAG
* * * *
50407714 CTATCGATTATAAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGGTGGTGACGACCATCGA
1 CCATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATCGA
* * *
50407779 TTAATGAAAAGGGAT-GGTTCCG
66 AT-ATGAAAAGGGATAGCTTCAG
* * * *
50407801 ACCATCGAA-TATGAAACGGTATGGTTACAACCATCA
1 -CCATC-AATTATGAAAAGGGATGGTGACGACCATCA
50407837 TTTAGCACAC
Statistics
Matches: 178, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
87 139 0.78
88 38 0.21
89 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (87 bp):
CCATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATCGA
ATATGAAAAGGGATAGCTTCAG
Found at i:50407824 original size:29 final size:30
Alignment explanation
Indices: 50407520--50407835 Score: 191
Period size: 29 Copynumber: 10.8 Consensus size: 30
50407510 GCTATCGATT
* *
50407520 ATGAAAAGAGATGGTGACGACCATC-AACT-
1 ATGAAAAGGGATGGTTACGACCATCGAA-TA
*
50407549 ATGAAAAGGGAT-ATTGACGACCATC-AACT-
1 ATGAAAAGGGATGGTT-ACGACCATCGAA-TA
*
50407578 ATGAAAAGGGAT-ATTGACGACCATCGAAT-
1 ATGAAAAGGGATGGTT-ACGACCATCGAATA
* * *
50407607 ATGAAAAGGGATAGCTT-C-AGCTATCG-ATT
1 ATGAAAAGGGAT-GGTTACGA-CCATCGAATA
* * **
50407636 CTGAAAAGGGATGGTGACGACCATAAAAT-
1 ATGAAAAGGGATGGTTACGACCATCGAATA
* * *
50407665 ATGAAAAGAGATGGTGATGACCATCGAAT-
1 ATGAAAAGGGATGGTTACGACCATCGAATA
* * *
50407694 ATGAAAAGGGATAGCTT-C-AGCTATCG-ATT
1 ATGAAAAGGGAT-GGTTACGA-CCATCGAATA
* *
50407723 ATAAAAAGGGATGGTGACGACCATC-AACT-
1 ATGAAAAGGGATGGTTACGACCATCGAA-TA
* * *
50407752 ATGAAAAGGGGTGGTGACGACCATCGATTA
1 ATGAAAAGGGATGGTTACGACCATCGAATA
*
50407782 ATGAAAAGGGATGGTTCCGACCATCGAAT-
1 ATGAAAAGGGATGGTTACGACCATCGAATA
* * *
50407811 ATGAAACGGTATGGTTACAACCATC
1 ATGAAAAGGGATGGTTACGACCATC
50407836 ATTTAGCACA
Statistics
Matches: 233, Mismatches: 36, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
28 11 0.05
29 185 0.79
30 35 0.15
31 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (30 bp):
ATGAAAAGGGATGGTTACGACCATCGAATA
Found at i:50407834 original size:59 final size:58
Alignment explanation
Indices: 50407513--50407835 Score: 235
Period size: 58 Copynumber: 5.6 Consensus size: 58
50407503 AGCTTCGGCT
* * * * * * **
50407513 ATCGATTATGAAAAGAGATGGTGACGACCATCAACTATGAAAAGGGATATTGACGACC
1 ATCGAATATGAAAAGGGATGGTTACAACCATCGATTATGAAAAGGGATGGTGACGACC
* * * * * *
50407571 ATC-AACTATGAAAAGGGAT-ATTGACGACCATCGAATATGAAAAGGGATAGCT-TC-AGCT
1 ATCGAA-TATGAAAAGGGATGGTT-ACAACCATCGATTATGAAAAGGGAT-GGTGACGA-CC
* * * * ** * * *
50407629 ATCGATTCTGAAAAGGGATGGTGACGACCATAAAATATGAAAAGAGATGGTGATGACC
1 ATCGAATATGAAAAGGGATGGTTACAACCATCGATTATGAAAAGGGATGGTGACGACC
* * * *
50407687 ATCGAATATGAAAAGGGATAGCTT-CAGCTATCGATTATAAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGAT-GGTTACAACCATCGATTATGAAAAGGGATGGTGACGACC
* * * **
50407745 ATC-AACTATGAAAAGGGGTGGTGACGACCATCGATTAATGAAAAGGGATGGTTCCGACC
1 ATCGAA-TATGAAAAGGGATGGTTACAACCATCGATT-ATGAAAAGGGATGGTGACGACC
* *
50407804 ATCGAATATGAAACGGTATGGTTACAACCATC
1 ATCGAATATGAAAAGGGATGGTTACAACCATC
50407836 ATTTAGCACA
Statistics
Matches: 204, Mismatches: 48, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
57 9 0.04
58 144 0.71
59 49 0.24
60 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGATGGTTACAACCATCGATTATGAAAAGGGATGGTGACGACC
Found at i:50411881 original size:22 final size:22
Alignment explanation
Indices: 50411853--50411908 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
50411843 ACTGATCATT
50411853 ATGTCGCAACATGGAGGGTTCA
1 ATGTCGCAACATGGAGGGTTCA
50411875 ATGTCGCAACATGGAGGGTTCA
1 ATGTCGCAACATGGAGGGTTCA
50411897 ATGTCGCAACAT
1 ATGTCGCAACAT
50411909 AGGGAGCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (22 bp):
ATGTCGCAACATGGAGGGTTCA
Found at i:50418588 original size:30 final size:30
Alignment explanation
Indices: 50418554--50418619 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
50418544 AATTGGCATA
50418554 AGTGACCTAATTTG-TCAATAATAAAAGTTT
1 AGTGACCTAATTTGATCAA-AATAAAAGTTT
** * *
50418584 AGTGATTTAATTTGATGAAATTAAAAGTTT
1 AGTGACCTAATTTGATCAAAATAAAAGTTT
50418614 A-TGACC
1 AGTGACC
50418620 CATATGATAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
29 3 0.10
30 23 0.79
31 3 0.10
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (30 bp):
AGTGACCTAATTTGATCAAAATAAAAGTTT
Found at i:50418873 original size:17 final size:18
Alignment explanation
Indices: 50418853--50418895 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
50418843 ATATAAATAA
50418853 TAATTTTATT-CTTTC-TT
1 TAATTTT-TTGCTTTCTTT
*
50418870 TAATTTTTTGGTTTCTTT
1 TAATTTTTTGCTTTCTTT
50418888 TAATTTTT
1 TAATTTTT
50418896 AAATTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 11 0.48
18 10 0.43
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (18 bp):
TAATTTTTTGCTTTCTTT
Found at i:50432052 original size:16 final size:16
Alignment explanation
Indices: 50432031--50432063 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50432021 ATATAAATAT
*
50432031 AATAATATTAATAAAA
1 AATAATATCAATAAAA
50432047 AATAATATCAATAAAA
1 AATAATATCAATAAAA
50432063 A
1 A
50432064 TATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAATATCAATAAAA
Found at i:50432069 original size:28 final size:30
Alignment explanation
Indices: 50432012--50432069 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
50432002 TATTCTAAAT
*
50432012 TAAAAACTAATATAAATATAATAATATTAA
1 TAAAAAATAATATAAATATAATAATATTAA
*
50432042 TAAAAAATAATATCAATA-AA-AATATTAA
1 TAAAAAATAATATAAATATAATAATATTAA
50432070 AATTTAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 8 0.31
29 2 0.08
30 16 0.62
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (30 bp):
TAAAAAATAATATAAATATAATAATATTAA
Found at i:50432070 original size:25 final size:25
Alignment explanation
Indices: 50432010--50432088 Score: 63
Period size: 30 Copynumber: 3.0 Consensus size: 25
50432000 TCTATTCTAA
* *
50432010 ATTAAAAACTAATATAAATATAATAAT
1 ATTAAAAAATAATATCAATA-AA-AAT
50432037 ATTAATAAAAAATAATATCAATAAAAAT
1 A-T--TAAAAAATAATATCAATAAAAAT
* *
50432065 ATT-AAAATTTA-ATCAATAAAAAT
1 ATTAAAAAATAATATCAATAAAAAT
50432088 A
1 A
50432089 AAATTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
23 13 0.29
24 6 0.13
25 1 0.02
27 2 0.04
28 5 0.11
29 2 0.04
30 16 0.36
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
ATTAAAAAATAATATCAATAAAAAT
Found at i:50432124 original size:32 final size:31
Alignment explanation
Indices: 50432083--50432151 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
50432073 TTAATCAATA
50432083 AAAATAAAATTAAAA-TCTAAATTCCCAAATCAT
1 AAAA-AAAA-TAAAACTCTAAATT-CCAAATCAT
* *
50432116 AAAAAAAATAAAACTTTAAATTTCAAATCAT
1 AAAAAAAATAAAACTCTAAATTCCAAATCAT
*
50432147 TAAAA
1 AAAAA
50432152 TTAAACTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 17 0.53
32 11 0.34
33 4 0.12
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.28
Consensus pattern (31 bp):
AAAAAAAATAAAACTCTAAATTCCAAATCAT
Found at i:50432639 original size:9 final size:9
Alignment explanation
Indices: 50432625--50432691 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
50432615 TTTGGTTAAA
50432625 AATTAACCG
1 AATTAACCG
50432634 AATTAACCG
1 AATTAACCG
*
50432643 TATT-ACTCG
1 AATTAAC-CG
50432652 AATTAACCG
1 AATTAACCG
50432661 AATT-ACTCG
1 AATTAAC-CG
*
50432670 AATTACCCG
1 AATTAACCG
50432679 AATTAACCG
1 AATTAACCG
50432688 AATT
1 AATT
50432692 GAATCACTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
8 4 0.08
9 43 0.86
10 3 0.06
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:50432663 original size:27 final size:27
Alignment explanation
Indices: 50432625--50432691 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
50432615 TTTGGTTAAA
* *
50432625 AATTAACCGAATTAAC-CGTATTACTCG
1 AATTAACCGAATT-ACTCGAATTACCCG
50432652 AATTAACCGAATTACTCGAATTACCCG
1 AATTAACCGAATTACTCGAATTACCCG
50432679 AATTAACCGAATT
1 AATTAACCGAATT
50432692 GAATCACTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (27 bp):
AATTAACCGAATTACTCGAATTACCCG
Found at i:50432721 original size:17 final size:17
Alignment explanation
Indices: 50432699--50432759 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
50432689 ATTGAATCAC
50432699 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
50432716 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
50432736 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
50432753 TACATAA
1 TACATAA
50432760 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:50432731 original size:37 final size:37
Alignment explanation
Indices: 50432690--50432764 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
50432680 ATTAACCGAA
50432690 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
50432727 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
50432764 T
1 T
50432765 GAAATTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:50432778 original size:37 final size:37
Alignment explanation
Indices: 50432690--50432781 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
50432680 ATTAACCGAA
*
50432690 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
50432727 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
50432763 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
50432782 GAAATGTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 3 0.06
37 46 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:50432895 original size:12 final size:12
Alignment explanation
Indices: 50432874--50432904 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50432864 AACATGTGCC
50432874 TATTTATATTTT
1 TATTTATATTTT
*
50432886 TATTTTTATTTT
1 TATTTATATTTT
50432898 TATTTAT
1 TATTTAT
50432905 TAAATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTTATATTTT
Found at i:50432943 original size:13 final size:13
Alignment explanation
Indices: 50432927--50432951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50432917 AATTTTTATG
50432927 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
50432940 ATTGGGTTGGGT
1 ATTGGGTTGGGT
50432952 TAGATACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:50432951 original size:18 final size:19
Alignment explanation
Indices: 50432928--50432975 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
50432918 ATTTTTATGA
50432928 TTGGGTTGGGTAATTGGG-
1 TTGGGTTGGGTAATTGGGT
* * *
50432946 TTGGGTTAGATACTTGGGT
1 TTGGGTTGGGTAATTGGGT
*
50432965 TTGGATTGGGT
1 TTGGGTTGGGT
50432976 TTAGGCGAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.12, C:0.02, G:0.44, T:0.42
Consensus pattern (19 bp):
TTGGGTTGGGTAATTGGGT
Found at i:50444017 original size:36 final size:36
Alignment explanation
Indices: 50443970--50444039 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
50443960 AACTCTATTC
*
50443970 AGTTCAATAGCCTTTTGGATCTATTCTAACTGATTT
1 AGTTCAATAGCCTTTCGGATCTATTCTAACTGATTT
* *
50444006 AGTTCAGTAGCCTTTCGGATCTATTCTGACTGAT
1 AGTTCAATAGCCTTTCGGATCTATTCTAACTGAT
50444040 GTGATCCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (36 bp):
AGTTCAATAGCCTTTCGGATCTATTCTAACTGATTT
Found at i:50448095 original size:6 final size:6
Alignment explanation
Indices: 50448084--50448127 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
50448074 CTTATTGAAC
* * * *
50448084 ATAAAA ATAAAA TTAAAA AGAAAA ATTAAA ATGAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
50448128 TTCAAAATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:50448113 original size:19 final size:19
Alignment explanation
Indices: 50448086--50448138 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
50448076 TATTGAACAT
50448086 AAAAA-TAAAATTAAAA-A
1 AAAAATTAAAATTAAAATA
*
50448103 GAAAAATTAAAATGAAAATA
1 -AAAAATTAAAATTAAAATA
*
50448123 AAAATTTCAAAATTAA
1 AAAAATT-AAAATTAA
50448139 TTAGAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 16 0.55
20 8 0.28
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAATTAAAATA
Found at i:50450384 original size:118 final size:118
Alignment explanation
Indices: 50450171--50450413 Score: 468
Period size: 118 Copynumber: 2.1 Consensus size: 118
50450161 CTCCAATGTT
*
50450171 GTTGCTTGGCCTTGAATCAAGGCATCATTTTTAACAATTTATTTCTTTAACAAGTTCTCCAAATC
1 GTTGATTGGCCTTGAATCAAGGCATCATTTTTAACAATTTATTTCTTTAACAAGTTCTCCAAATC
50450236 ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
66 ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
*
50450289 GTTGATTGGCCTTGAATCAAGGCATCATTTTTAACAGTTTATTTCTTTAACAAGTTCTCCAAATC
1 GTTGATTGGCCTTGAATCAAGGCATCATTTTTAACAATTTATTTCTTTAACAAGTTCTCCAAATC
50450354 ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
66 ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
50450407 GTTGATT
1 GTTGATT
50450414 TGATTTGCGC
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 123 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (118 bp):
GTTGATTGGCCTTGAATCAAGGCATCATTTTTAACAATTTATTTCTTTAACAAGTTCTCCAAATC
ATTTGAAGGCTCAACTTGCGATGGGTTTTGAACTTGTTGATTGAAACCAAGAG
Found at i:50465507 original size:18 final size:18
Alignment explanation
Indices: 50465484--50465520 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50465474 GCCGAGAAAG
50465484 AAAGACATAATATGGGTT
1 AAAGACATAATATGGGTT
50465502 AAAGACATAATATGGGTT
1 AAAGACATAATATGGGTT
50465520 A
1 A
50465521 TGGTTGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (18 bp):
AAAGACATAATATGGGTT
Found at i:50467589 original size:26 final size:26
Alignment explanation
Indices: 50467560--50467679 Score: 127
Period size: 26 Copynumber: 4.7 Consensus size: 26
50467550 GTAAGTCTTC
* * *
50467560 AGCCGGTGTTTATTTAGTAGGCCTTA
1 AGCCGATGTTTATTTAGCAGGACTTA
*
50467586 AGCCGATGTTTATTTAGCAGGCCTTA
1 AGCCGATGTTTATTTAGCAGGACTTA
*
50467612 AGTCGATGTTTATTTAGCAGGACTTGA
1 AGCCGATGTTTATTTAGCAGGACTT-A
* * * *
50467639 A-TCGGT-TTTATTTAGCAGGATTTG
1 AGCCGATGTTTATTTAGCAGGACTTA
*
50467663 AGCCGATGTATATTTAG
1 AGCCGATGTTTATTTAG
50467680 TAGGTACTAT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.01
25 19 0.23
26 59 0.73
27 2 0.02
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.38
Consensus pattern (26 bp):
AGCCGATGTTTATTTAGCAGGACTTA
Found at i:50473264 original size:26 final size:26
Alignment explanation
Indices: 50473235--50473287 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
50473225 TCATAAATGA
50473235 GTAAGACCATAGCTGAAAGATGTTAT
1 GTAAGACCATAGCTGAAAGATGTTAT
*
50473261 GTAAGACCATAGTTGAAAGATGTTAT
1 GTAAGACCATAGCTGAAAGATGTTAT
50473287 G
1 G
50473288 GCATCATGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (26 bp):
GTAAGACCATAGCTGAAAGATGTTAT
Found at i:50481072 original size:27 final size:27
Alignment explanation
Indices: 50481031--50481083 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
50481021 GGGGGTAACA
*
50481031 TAGAAAATTTGTTTTAAATTTTTATGC
1 TAGAAAATTTATTTTAAATTTTTATGC
50481058 TAGAAAATTTATTTTAAATTTTTATG
1 TAGAAAATTTATTTTAAATTTTTATG
50481084 TTGTTCTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (27 bp):
TAGAAAATTTATTTTAAATTTTTATGC
Found at i:50486823 original size:61 final size:58
Alignment explanation
Indices: 50486711--50486843 Score: 169
Period size: 61 Copynumber: 2.2 Consensus size: 58
50486701 ATCACTTTAA
* * * *
50486711 TATTAAATTAATATAATATTTATCAAGAAAAATATTATATTAAATTTAATATTAAATC
1 TATTAAATTAATATAATATTTATCAAGAAAAACATTAAATTAAATTAAATATCAAATC
*
50486769 TTATTAAATTAATA-AATATTTATCTGTAAGATAAACATTAAATTAAATTAAATATCAAATC
1 -TATTAAATTAATATAATATTTATC---AAGAAAAACATTAAATTAAATTAAATATCAAATC
*
50486830 TATTAAAATAATAT
1 TATTAAATTAATAT
50486844 TATTTTTGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 10 0.16
59 13 0.20
60 12 0.19
61 29 0.45
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATATAATATTTATCAAGAAAAACATTAAATTAAATTAAATATCAAATC
Found at i:50491796 original size:24 final size:24
Alignment explanation
Indices: 50491744--50491847 Score: 102
Period size: 24 Copynumber: 4.2 Consensus size: 24
50491734 GTACATGTAT
* ** *
50491744 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTGT-AAAAGGTAA
*
50491769 GCTCTTACGAGCTGTAAAAGGTAA
1 GCTCATACGAGCTGTAAAAGGTAA
*
50491793 GCTCATACGAGCTGTAAACGGTAA
1 GCTCATACGAGCTGTAAAAGGTAA
* *
50491817 GCTCATACAAGCTG-AATATTGGTAA
1 GCTCATACGAGCTGTAA-A-AGGTAA
50491842 GCTCAT
1 GCTCAT
50491848 GTGAGCTGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
23 2 0.03
24 42 0.62
25 24 0.35
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (24 bp):
GCTCATACGAGCTGTAAAAGGTAA
Found at i:50491841 original size:49 final size:48
Alignment explanation
Indices: 50491744--50491870 Score: 123
Period size: 49 Copynumber: 2.6 Consensus size: 48
50491734 GTACATGTAT
* * * * *
50491744 GCTCATACGAGCTCTGAATCGGTATGCTCTTACGAGCTGTAAAAGGTAA
1 GCTCATACGAGCTGT-AAACGGTAAGCTCATACAAGCTGTAAAAGGTAA
*
50491793 GCTCATACGAGCTGTAAACGGTAAGCTCATACAAGCTG-AATATTGGTAA
1 GCTCATACGAGCTGTAAACGGTAAGCTCATACAAGCTGTAA-A-AGGTAA
**
50491842 GCTCATGTGAGCTG-AATATCGGTAAGCTC
1 GCTCATACGAGCTGTAA-A-CGGTAAGCTC
50491871 TCTTGAGCTG
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
47 2 0.03
48 22 0.33
49 32 0.48
50 10 0.15
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (48 bp):
GCTCATACGAGCTGTAAACGGTAAGCTCATACAAGCTGTAAAAGGTAA
Found at i:50491846 original size:25 final size:25
Alignment explanation
Indices: 50491744--50491870 Score: 113
Period size: 25 Copynumber: 5.2 Consensus size: 25
50491734 GTACATGTAT
*
50491744 GCTCATACGAGCTCTG-A-ATCGGTAT
1 GCTCATACGAG--CTGAATATCGGTAA
* *
50491769 GCTCTTACGAGCTGTAA-A-AGGTAA
1 GCTCATACGAGCTG-AATATCGGTAA
50491793 GCTCATACGAGCTGTAA-A-CGGTAA
1 GCTCATACGAGCTG-AATATCGGTAA
* *
50491817 GCTCATACAAGCTGAATATTGGTAA
1 GCTCATACGAGCTGAATATCGGTAA
**
50491842 GCTCATGTGAGCTGAATATCGGTAA
1 GCTCATACGAGCTGAATATCGGTAA
50491867 GCTC
1 GCTC
50491871 TCTTGAGCTG
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.06
24 40 0.46
25 42 0.48
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTGAATATCGGTAA
Found at i:50491877 original size:25 final size:25
Alignment explanation
Indices: 50491788--50491891 Score: 90
Period size: 25 Copynumber: 4.2 Consensus size: 25
50491778 AGCTGTAAAA
**
50491788 GGTAAGCTCATACGAGCTGTAA-A-C
1 GGTAAGCTCATGTGAGCTG-AATATC
*** *
50491812 GGTAAGCTCATACAAGCTGAATATT
1 GGTAAGCTCATGTGAGCTGAATATC
50491837 GGTAAGCTCATGTGAGCTGAATATC
1 GGTAAGCTCATGTGAGCTGAATATC
*
50491862 GGTAAGCTC-TCTTGAGCTGAGA-ATC
1 GGTAAGCTCAT-GTGAGCTGA-ATATC
50491887 GGTAA
1 GGTAA
50491892 TCCTAATGAC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.03
24 20 0.29
25 46 0.67
26 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (25 bp):
GGTAAGCTCATGTGAGCTGAATATC
Found at i:50519150 original size:45 final size:45
Alignment explanation
Indices: 50519101--50519297 Score: 186
Period size: 45 Copynumber: 4.4 Consensus size: 45
50519091 TCATTTTATT
*
50519101 ATAGTGTCTTTCAACTACGGTCTTACACTTTTGAATCATGATGCC
1 ATAGTGTCTTTCAACTACGGTCTTACTCTTTTGAATCATGATGCC
* * ** * * *
50519146 ATAGTGTCTTTTAGCTATTGT-TGTACTCGTCTGAATCGTGATGCC
1 ATAGTGTCTTTCAACTACGGTCT-TACTCTTTTGAATCATGATGCC
* * *
50519191 ATAATGTCTTTTC-ACTATGGTCTTACTCATTTGAATCATGATGCC
1 ATAGTGTC-TTTCAACTACGGTCTTACTCTTTTGAATCATGATGCC
* * * * *
50519236 ATAATGTCTTTCAGCTACAGTCTTACTCGTTTCTG-GT-ATGGTGCC
1 ATAGTGTCTTTCAACTACGGTCTTACTC-TTT-TGAATCATGATGCC
50519281 ATAGTGTCTTTCAACTA
1 ATAGTGTCTTTCAACTA
50519298 TGGTTTTATT
Statistics
Matches: 123, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
44 5 0.04
45 109 0.89
46 7 0.06
47 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (45 bp):
ATAGTGTCTTTCAACTACGGTCTTACTCTTTTGAATCATGATGCC
Found at i:50519281 original size:90 final size:90
Alignment explanation
Indices: 50519105--50519301 Score: 233
Period size: 90 Copynumber: 2.2 Consensus size: 90
50519095 TTTATTATAG
* * * * **
50519105 TGTCTTTCAACTACGGTCTTACACTTTTGAATCATGATGCCATAGTGTCTTTTAGCTATTGTTGT
1 TGTCTTTCAACTATGGTCTTACACATTTGAATCATGATGCCATAATGTCTTTCAGCTACAGTTGT
50519170 ACTCGTCTGAATCGTGATGCCATAA
66 ACTCGTCTGAATCGTGATGCCATAA
*
50519195 TGTCTTTTC-ACTATGGTCTTACTCATTTGAATCATGATGCCATAATGTCTTTCAGCTACAGTCT
1 TGTC-TTTCAACTATGGTCTTACACATTTGAATCATGATGCCATAATGTCTTTCAGCTACAGT-T
* *
50519259 -TACTCGTTTCTGGTAT-G-G-TGCCATAG
64 GTACTCG--TCT-GAATCGTGATGCCATAA
50519285 TGTCTTTCAACTATGGT
1 TGTCTTTCAACTATGGT
50519302 TTTATTTATT
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
89 4 0.04
90 75 0.82
91 6 0.07
92 4 0.04
93 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (90 bp):
TGTCTTTCAACTATGGTCTTACACATTTGAATCATGATGCCATAATGTCTTTCAGCTACAGTTGT
ACTCGTCTGAATCGTGATGCCATAA
Found at i:50522266 original size:53 final size:53
Alignment explanation
Indices: 50522193--50522402 Score: 249
Period size: 53 Copynumber: 4.0 Consensus size: 53
50522183 GCCATGCACT
* * * *
50522193 AAAGAAGACCACATCATGTAATACCCTAATTGGTGGGTTATGGCATCATATGG
1 AAAGAAGACCACATCATGTAAGACCGTAACTGGTGGGTTATGACATCATATGG
* * * * *
50522246 AAAGAAGACCATATCCTGTAAGATCGTAACTGATAGGTTATGACATCATATGG
1 AAAGAAGACCACATCATGTAAGACCGTAACTGGTGGGTTATGACATCATATGG
* * ** * *
50522299 AAAGAAGAACATATTGTGTAAGGCTGTAACTGGTGGGTTATGACATCATATGG
1 AAAGAAGACCACATCATGTAAGACCGTAACTGGTGGGTTATGACATCATATGG
* * * *
50522352 AAGGAAGACCACATCATGTAAGACCATAACTGGTTGGTTATGACATTATAT
1 AAAGAAGACCACATCATGTAAGACCGTAACTGGTGGGTTATGACATCATAT
50522403 CAAAAAAATT
Statistics
Matches: 130, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 130 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (53 bp):
AAAGAAGACCACATCATGTAAGACCGTAACTGGTGGGTTATGACATCATATGG
Found at i:50522637 original size:61 final size:60
Alignment explanation
Indices: 50522531--50522780 Score: 234
Period size: 61 Copynumber: 4.1 Consensus size: 60
50522521 GGAAAGCATC
* * * * * * * * *
50522531 TGTGGCGAGTAATGAATGTAAATGACAGCCTTTATAGCAAAACTCTGGATAGGAAAATCTT
1 TGTGGCGAGTACTAAATGTAAAGGA-AACTTTTGTGGCAAAACTCTAGATAGGAAAACCTT
* * *
50522592 TGTGGCGAGTACTAAATGTAAAAGGAAACTTTTGTGGCAACACTCTTGATAGGAAAGA-TTT
1 TGTGGCGAGTACTAAATGT-AAAGGAAACTTTTGTGGCAAAACTCTAGATAGGAAA-ACCTT
* ** * *
50522653 TGTGGCTAGTACCGAATGTAAAGGAAAACTATTGTGGCAAAACTCTAGACAGGAAAACCTT
1 TGTGGCGAGTACTAAATGTAAAGG-AAACTTTTGTGGCAAAACTCTAGATAGGAAAACCTT
* * * * *
50522714 TGTGTCGAGTCCTTAATGTAAAGGACAACCTTTGTAGCAAAACTCTAGATA-GAAAAGCCTT
1 TGTGGCGAGTACTAAATGTAAAGGA-AACTTTTGTGGCAAAACTCTAGATAGGAAAA-CCTT
50522775 TGTGGC
1 TGTGGC
50522781 AACCTCTATT
Statistics
Matches: 155, Mismatches: 28, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
60 12 0.08
61 137 0.88
62 6 0.04
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (60 bp):
TGTGGCGAGTACTAAATGTAAAGGAAACTTTTGTGGCAAAACTCTAGATAGGAAAACCTT
Found at i:50522873 original size:29 final size:28
Alignment explanation
Indices: 50522818--50522887 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
50522808 AAAATCTTTA
*
50522818 AAAGGAAATGCCTTTATGGCGATCTCTAT
1 AAAGGAAA-GCCTTTATGGCGACCTCTAT
*
50522847 CAAAGGAAAGCCTTTGA-GGCTACCTCTAT
1 -AAAGGAAAGCCTTT-ATGGCGACCTCTAT
*
50522876 AAAAG-AAGCCTT
1 AAAGGAAAGCCTT
50522888 CTTGGCTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.19
28 4 0.11
29 16 0.44
30 9 0.25
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (28 bp):
AAAGGAAAGCCTTTATGGCGACCTCTAT
Found at i:50537342 original size:44 final size:44
Alignment explanation
Indices: 50537292--50537379 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
50537282 TAATTAACTA
50537292 TCCAATTAACAAAATTAAAGGATCAAACTCTAATTAAACCTCAT
1 TCCAATTAACAAAATTAAAGGATCAAACTCTAATTAAACCTCAT
50537336 TCCAATTAACAAAATTAAAGGATCAAACTCTAATTAAACCTCAT
1 TCCAATTAACAAAATTAAAGGATCAAACTCTAATTAAACCTCAT
50537380 ACTAACCTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (44 bp):
TCCAATTAACAAAATTAAAGGATCAAACTCTAATTAAACCTCAT
Found at i:50538881 original size:21 final size:21
Alignment explanation
Indices: 50538852--50538893 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
50538842 AAACCTGGTA
* *
50538852 AAAGTTATCAATTCTTTTTGT
1 AAAGGTATCAATACTTTTTGT
50538873 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
50538894 GTAATTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:50542399 original size:26 final size:22
Alignment explanation
Indices: 50542347--50542401 Score: 58
Period size: 26 Copynumber: 2.4 Consensus size: 22
50542337 GAGTATAGGA
50542347 ATTTAT-AATTAATTATTATTT
1 ATTTATAAATTAATTATTATTT
*
50542368 AATTATAAATTAAATTATTAATATAT
1 ATTTATAAATT-AATTATT-AT-T-T
50542394 ATTTATAA
1 ATTTATAA
50542402 TTCTTCAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 7 0.26
24 2 0.07
25 1 0.04
26 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTATAAATTAATTATTATTT
Found at i:50543652 original size:126 final size:126
Alignment explanation
Indices: 50543508--50543790 Score: 410
Period size: 126 Copynumber: 2.3 Consensus size: 126
50543498 TTTTTTTAAG
** * * *
50543508 TTGACGTTTCTG-GTCAAATAGTGGGAAATCGCCT-CCAGCAGGATGCTATTTGAGAAGAAATTG
1 TTGACGTTTCTGAG-CAAATAGTGTAAAATCGCCTGACACCAGGATGCTATATGAGAAGAAATTG
* *
50543571 TGAAATCGTGCCCTCATGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
65 TGAAATCGCGCCCTCATGGACGCGATTTCGCTACAATTGGTCATGTAGGAAATAATTATTTT
* *
50543633 TTGACGTTTTCTGAGCAAATAGTATAAAATCG-CTGATACCAGGATGCTATATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTGTAAAATCGCCTGACACCAGGATGCTATATGAGAAGAAATTG
* *
50543697 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTATAATTGGTCATGTAGGAAATAATTATTTT
65 TGAAATCGCGCCCTCATGGACGCGATTTCGCTACAATTGGTCATGTAGGAAATAATTATTTT
* *
50543759 TTGGCGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTGTAAAATCGC
50543791 GCCCTCGTGG
Statistics
Matches: 140, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
125 31 0.22
126 108 0.77
127 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTGTAAAATCGCCTGACACCAGGATGCTATATGAGAAGAAATTGT
GAAATCGCGCCCTCATGGACGCGATTTCGCTACAATTGGTCATGTAGGAAATAATTATTTT
Found at i:50547067 original size:23 final size:23
Alignment explanation
Indices: 50547041--50547217 Score: 160
Period size: 23 Copynumber: 7.2 Consensus size: 23
50547031 GTTAATGGTT
50547041 AATTAGGTTAGAGTTTTAAATTA
1 AATTAGGTTAGAGTTTTAAATTA
50547064 AATTAGGTTAGAGTTTGTAATTAAATTA
1 AATTAGGTTAGAG--T-T--TTAAATTA
* * *
50547092 ATTTAGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGAGTTTTAAATTA
*
50547115 AATTAGGTTAGGGTTTTAAATTA
1 AATTAGGTTAGAGTTTTAAATTA
50547138 AATTAGGTTAGGGATAGGGATTTT-AATTA
1 AATTAGGTTA--G--A--G-TTTTAAATTA
* *
50547167 AATTAGGTTAGGGTTTTTAATTA
1 AATTAGGTTAGAGTTTTAAATTA
*
50547190 AATTAGGTTATG-GTTTTTAATTA
1 AATTAGGTTA-GAGTTTTAAATTA
50547213 AATTA
1 AATTA
50547218 AATTAAATTA
Statistics
Matches: 133, Mismatches: 7, Indels: 28
0.79 0.04 0.17
Matches are distributed among these distances:
22 4 0.03
23 83 0.62
24 1 0.01
25 3 0.02
26 2 0.02
27 1 0.01
28 19 0.14
29 16 0.12
30 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (23 bp):
AATTAGGTTAGAGTTTTAAATTA
Found at i:50547098 original size:51 final size:48
Alignment explanation
Indices: 50547039--50547217 Score: 195
Period size: 51 Copynumber: 3.6 Consensus size: 48
50547029 GTGTTAATGG
* *
50547039 TTAATTAGGTTAGAGTTTTAAATTAAATTAGGTTAGAGTTTGTAATTAAA
1 TTAATTAGGTTAGGGTTTT-AATTAAATTAGGTTAGGGTTT-TAATTAAA
50547089 TTAATTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTAAATTAAA
1 TTAA-TTAGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTTT-AATTAAA
* *
50547140 TTAGGTTAGGGATAGGGATTTTAATTAAATTAGGTTAGGG-TTT--TT-AA
1 TTA-ATTA-GGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTTTAATTAAA
*
50547187 TTAAATTAGGTTATGGTTTTTAATTAAATTA
1 TT-AATTAGGTTA-GGGTTTTAATTAAATTA
50547218 AATTAAATTA
Statistics
Matches: 114, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
46 18 0.16
47 9 0.08
48 3 0.03
50 5 0.04
51 46 0.40
52 33 0.29
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (48 bp):
TTAATTAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTTTAATTAAA
Found at i:50547125 original size:28 final size:28
Alignment explanation
Indices: 50547056--50547256 Score: 144
Period size: 28 Copynumber: 7.5 Consensus size: 28
50547046 GGTTAGAGTT
* * *
50547056 TTAAATTAAATTAGGTTAGAGTTTGTAA
1 TTAAATTAAGTTAGGTTAGGGTTTTTAA
*
50547084 TTAAATTAATTTAGGTTAGGGTTTTTAA
1 TTAAATTAAGTTAGGTTAGGGTTTTTAA
*
50547112 TT--A--AA-TTAGGTTAGGGTTTTAAA
1 TTAAATTAAGTTAGGTTAGGGTTTTTAA
* * *
50547135 TTAAATTAGGTTAGGGATAGGGATTTTAA
1 TTAAATTAAGTTA-GGTTAGGGTTTTTAA
50547164 TT--A--AA-TTAGGTTAGGGTTTTTAA
1 TTAAATTAAGTTAGGTTAGGGTTTTTAA
*
50547187 TTAAATTAGGTTATGGTT----TTTAATTAAA
1 TTAAATTAAGTTA-GGTTAGGGTTT--TT-AA
*
50547215 TTAAATTAAATTAGGTTAGGG-TTTTAA
1 TTAAATTAAGTTAGGTTAGGGTTTTTAA
* *
50547242 TTGAATTAGGTTAGG
1 TTAAATTAAGTTAGG
50547257 GTTTTTAATT
Statistics
Matches: 137, Mismatches: 17, Indels: 39
0.71 0.09 0.20
Matches are distributed among these distances:
23 34 0.25
24 5 0.04
25 6 0.04
26 1 0.01
27 23 0.17
28 48 0.35
29 18 0.13
30 2 0.01
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (28 bp):
TTAAATTAAGTTAGGTTAGGGTTTTTAA
Found at i:50547156 original size:29 final size:29
Alignment explanation
Indices: 50547123--50547179 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
50547113 TAAATTAGGT
50547123 TAGGG-TTTTAAATTAAATTAGGTTAGGGA
1 TAGGGATTTT-AATTAAATTAGGTTAGGGA
50547152 TAGGGATTTTAATTAAATTAGGTTAGGG
1 TAGGGATTTTAATTAAATTAGGTTAGGG
50547180 TTTTTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (29 bp):
TAGGGATTTTAATTAAATTAGGTTAGGGA
Found at i:50547222 original size:33 final size:32
Alignment explanation
Indices: 50547185--50547249 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
50547175 TAGGGTTTTT
*
50547185 AATTAAATTAGGTTATGGTTTTTAATTAAATTA
1 AATTAAATTAGGTTA-GGGTTTTAATTAAATTA
*
50547218 AATTAAATTAGGTTAGGGTTTTAATTGAATTA
1 AATTAAATTAGGTTAGGGTTTTAATTAAATTA
50547250 GGTTAGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (32 bp):
AATTAAATTAGGTTAGGGTTTTAATTAAATTA
Found at i:50547248 original size:22 final size:23
Alignment explanation
Indices: 50547218--50547266 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
50547208 AATTAAATTA
50547218 AATTAAATTAGGTTAGGG-TTTT
1 AATTAAATTAGGTTAGGGTTTTT
*
50547240 AATTGAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
50547263 AATT
1 AATT
50547267 TTAATCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (23 bp):
AATTAAATTAGGTTAGGGTTTTT
Found at i:50549426 original size:14 final size:15
Alignment explanation
Indices: 50549409--50549442 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50549399 AATAATTATC
50549409 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
50549423 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
50549438 TAAAA
1 TAAAA
50549443 TTTAAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:50549573 original size:28 final size:29
Alignment explanation
Indices: 50549540--50549597 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
50549530 TTGAAAATAT
50549540 TAAAAAT-TTTAAAATTATT-TTAAAAAAA
1 TAAAAATATTTAAAATT-TTCTTAAAAAAA
50549568 TAAAAATATTTAAAATTTTCTTAAAAAAA
1 TAAAAATATTTAAAATTTTCTTAAAAAAA
50549597 T
1 T
50549598 GAAATTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
TAAAAATATTTAAAATTTTCTTAAAAAAA
Found at i:50549671 original size:21 final size:23
Alignment explanation
Indices: 50549638--50549679 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
50549628 ATTTGGAGAT
*
50549638 TTTTTGAAGGAAA-TTGAGAGGA
1 TTTTGGAAGGAAATTTGAGAGGA
50549660 TTTTGGAA-GAAATTTGAGAG
1 TTTTGGAAGGAAATTTGAGAG
50549680 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (23 bp):
TTTTGGAAGGAAATTTGAGAGGA
Found at i:50549687 original size:30 final size:30
Alignment explanation
Indices: 50549651--50549709 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
50549641 TTGAAGGAAA
*
50549651 TTGAGAGGATTTTGGAAGAAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGAAATTTGAGAGT
*
50549681 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGGAAGAAATTTGAGAG
50549710 AATTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGAAATTTGAGAGT
Found at i:50549707 original size:52 final size:51
Alignment explanation
Indices: 50549629--50549731 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
50549619 TTAATATGGA
* * *
50549629 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAG-AAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGTAAA-TTGAGAG
* *
50549680 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAATTTTTGAAGTAAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGTAAATTGAGAG
50549732 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.09
52 38 0.84
53 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGTAAATTGAGAG
Found at i:50549708 original size:22 final size:22
Alignment explanation
Indices: 50549680--50549743 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
50549670 AATTTGAGAG
*
50549680 TTTGAGAGAATTTTGGAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
*
50549702 TTTGAGAGAATTTTTGAAGTAA
1 TTTGAGAGAATTTTTGAAGGAA
*
50549724 ATTGAGAGAATTTTTGAAGG
1 TTTGAGAGAATTTTTGAAGG
50549744 GTATGAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (22 bp):
TTTGAGAGAATTTTTGAAGGAA
Found at i:50551798 original size:2 final size:2
Alignment explanation
Indices: 50551791--50551817 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50551781 AAAATTTACA
50551791 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
50551818 AATTTAAAAC
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:50552280 original size:72 final size:72
Alignment explanation
Indices: 50552190--50552336 Score: 188
Period size: 72 Copynumber: 2.0 Consensus size: 72
50552180 AACGACACCA
* * * *
50552190 TTTCCGTGTTTTTGGGGATTTAGTGACGTTTTTAATCAAGCGCCACTAATAATCCTAAGCCAAAC
1 TTTCCGTGTTTTTGGGGATTTAGCGACGTTTTTAAGCAAGCGCCACTAAAAAACCTAAGCCAAAC
50552255 GGTGTCG
66 GGTGTCG
* ** * *
50552262 TTTCCGTAGTTTTT-GGGATTTAGCGGCGTTTTTGGGGAAGCGCCGCTAAAAAACCTAAGCCAAA
1 TTTCCGT-GTTTTTGGGGATTTAGCGACGTTTTTAAGCAAGCGCCACTAAAAAACCTAAGCCAAA
*
50552326 CGGTGTTG
65 CGGTGTCG
50552334 TTT
1 TTT
50552337 TCTCAGCTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 58 0.91
73 6 0.09
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (72 bp):
TTTCCGTGTTTTTGGGGATTTAGCGACGTTTTTAAGCAAGCGCCACTAAAAAACCTAAGCCAAAC
GGTGTCG
Found at i:50552380 original size:73 final size:72
Alignment explanation
Indices: 50552227--50552383 Score: 174
Period size: 72 Copynumber: 2.2 Consensus size: 72
50552217 GTTTTTAATC
* * * * * * *
50552227 AAGCGCCACTAATAATCCTAAGCCAAACGGTGTCGTTTCCGTAGTTTTTGGGATTTAGCGGCGTT
1 AAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTCGTTTCCGTAGCTTTCGGGAATTAGCGGCGTC
*
50552292 TTTGGGG
66 TTTGAGG
* *
50552299 AAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTTGTTTTC-TCAGCTTTCGTGGAATTAGCGGCG
1 AAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTCGTTTCCGT-AGCTTTCG-GGAATTAGCGGCG
*
50552363 -CTTTGATG
64 TCTTTGAGG
50552371 ATAGCGCCGCTAA
1 A-AGCGCCGCTAA
50552384 TGTTTAGGGC
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
71 1 0.01
72 47 0.66
73 23 0.32
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (72 bp):
AAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTCGTTTCCGTAGCTTTCGGGAATTAGCGGCGTC
TTTGAGG
Done.