Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 147 of 205
Found at i:44562784 original size:21 final size:22
Alignment explanation
Indices: 44562760--44562804 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
44562750 TCTATATATA
*
44562760 TATTTGAATTTTT-TATATGTT
1 TATTTCAATTTTTATATATGTT
* *
44562781 TATTTCTATTTTTATATATTTT
1 TATTTCAATTTTTATATATGTT
44562803 TA
1 TA
44562805 ATGTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (22 bp):
TATTTCAATTTTTATATATGTT
Found at i:44570125 original size:19 final size:19
Alignment explanation
Indices: 44570101--44570143 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
44570091 TTCAGTTTAT
*
44570101 TTATTTATGAACAAGTAAA
1 TTATTTATGAACAAGCAAA
*
44570120 TTATTTATGTACAAGCAAA
1 TTATTTATGAACAAGCAAA
44570139 -TATTT
1 TTATTT
44570144 TTTTTCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (19 bp):
TTATTTATGAACAAGCAAA
Found at i:44576311 original size:104 final size:105
Alignment explanation
Indices: 44575922--44576611 Score: 708
Period size: 105 Copynumber: 6.7 Consensus size: 105
44575912 ATTTAAAGAT
* *
44575922 GCTGATTTTTCAAAGGTTAGTTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTA
1 GCTGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTA
** * **
44575987 AGATCGCAACTTCCGAATAGCTCGATGACCTACACTCACA
66 AGATCGCAACTTCTAAACAGCTCGATGACCTACGTTCACA
* * * * * *
44576027 GCCGATTTTACAAAGGTTAGATGATTTAATATTGCAACATATTCATCTTTGAGGTAGCTGATTTA
1 GCTGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTA
* * * *
44576092 AGACCGCAACTTCTAAACAACTCAATGACCTACGTTTA-A
66 AGATCGCAACTTCTAAACAGCTCGATGACCTACGTTCACA
* * * * * *
44576131 GGTTGATTTTACAAAGGTTAGCTGATTTAAGATTGTAACATATTCATATTTGAGTTAGCTGATTT
1 -GCTGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTT
* * * * * * *
44576196 AAGATCACAAC-TCATAAATAGCTCGACGACTTATGTTCGCG
65 AAGATCGCAACTTC-TAAACAGCTCGATGACCTACGTTCACA
* * *
44576237 GTTGATTTTACAAAGGTTAGCTGATTTAA-ATCACAACCTATTCATCTTTGAGTTAGCTGATTTA
1 GCTGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTA
*
44576301 AGATCGCAACTTCTAAATAGCTCGATGACCTACGTTCACA
66 AGATCGCAACTTCTAAACAGCTCGATGACCTACGTTCACA
* * * * *
44576341 ACTGATTTTACAAAAG-T--TTG--TT--G-T-GCAATCTATCCATCTTTGAGTTAACTGATTTA
1 GCTGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTA
* * * * *
44576397 AGATCGCAACTCCTAAACAGCTTGATAACCTATGTTTACA
66 AGATCGCAACTTCTAAACAGCTCGATGACCTACGTTCACA
* * * * * *
44576437 GCTAATTTTACAAAGGTTAGTTGATTTAATATCTCAACCTATCCATATTTGAGTTAGTTGATTTA
1 GCTGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTA
* * * *
44576502 AGATTGTAGC-TCTTAAACAACTCG-TGACCTACGTTCAC-
66 AGATCGCAACTTC-TAAACAGCTCGATGACCTACGTTCACA
* * * * *
44576540 GATTGATTTGACAAAGGTTAGTTGATTTAAGATCGCAACTTATCCATTTTTGAGTTAGCTGATTT
1 G-CTGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTT
44576605 AAGATCG
65 AAGATCG
44576612 TGACTTTTAA
Statistics
Matches: 482, Mismatches: 87, Indels: 33
0.80 0.14 0.05
Matches are distributed among these distances:
96 75 0.16
97 2 0.00
99 5 0.01
101 4 0.01
103 2 0.00
104 151 0.31
105 243 0.50
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (105 bp):
GCTGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTA
AGATCGCAACTTCTAAACAGCTCGATGACCTACGTTCACA
Found at i:44576445 original size:96 final size:96
Alignment explanation
Indices: 44576274--44576459 Score: 264
Period size: 96 Copynumber: 1.9 Consensus size: 96
44576264 AAATCACAAC
* * * * *
44576274 CTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAACTTCTAAATAGCTCGATGACCTACGTTCA
1 CTATCCATCTTTGAGTTAACTGATTTAAGATCGCAACTCCTAAACAGCTCGATAACCTACGTTCA
* *
44576339 CAACTGATTTTACAAAAGTTTGTTGTGCAAT
66 CAACTAATTTTACAAAAGTTAGTTGTGCAAT
* * *
44576370 CTATCCATCTTTGAGTTAACTGATTTAAGATCGCAACTCCTAAACAGCTTGATAACCTATGTTTA
1 CTATCCATCTTTGAGTTAACTGATTTAAGATCGCAACTCCTAAACAGCTCGATAACCTACGTTCA
* *
44576435 CAGCTAATTTTACAAAGGTTAGTTG
66 CAACTAATTTTACAAAAGTTAGTTG
44576460 ATTTAATATC
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (96 bp):
CTATCCATCTTTGAGTTAACTGATTTAAGATCGCAACTCCTAAACAGCTCGATAACCTACGTTCA
CAACTAATTTTACAAAAGTTAGTTGTGCAAT
Found at i:44576532 original size:200 final size:200
Alignment explanation
Indices: 44575960--44576563 Score: 516
Period size: 200 Copynumber: 3.0 Consensus size: 200
44575950 AGATCACAAC
* * * ** * ** ***
44575960 CTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAACTTC-CGAATAGCTCGATGACCTACACTC
1 CTATCCATCTTTGAGTTAACTGATTTAAGATCACAAC-TCATAAACAGCTCGACAACCTATGTTC
** * ** * * * *
44576024 ACAGCCGATTTTACAAAGGTTAGATGATTTAATATTGCAACATATTCATCTTTGAGGTAGCTGAT
65 ACAGCTAATTTTACAAAGGTTAGCTGATTTAA-ATCACAACCTATCCATATTTGAGTTAGCTGAT
* * * ** * *
44576089 TTAAGACCGCAACTTCTAAACAACTCAATGACCTACGTTTA-AGGTTGATTTTACAAAGGTTAGC
129 TTAAGATCGCAACTTCTAAACAACTCGATGACCTACGTTCACA-ACTGATTTGACAAAAGTTA--
*
44576153 TGATTTAAGATTGTAA-
191 -G--TT--G--TGCAAT
* * * * * *
44576169 CATATTCATATTTGAGTTAGCTGATTTAAGATCACAACTCATAAATAGCTCGACGACTTATGTTC
1 C-TATCCATCTTTGAGTTAACTGATTTAAGATCACAACTCATAAACAGCTCGACAACCTATGTTC
* * * * * *
44576234 GCGGTTGATTTTACAAAGGTTAGCTGATTTAAATCACAACCTATTCATCTTTGAGTTAGCTGATT
65 ACAGCTAATTTTACAAAGGTTAGCTGATTTAAATCACAACCTATCCATATTTGAGTTAGCTGATT
* * * *
44576299 TAAGATCGCAACTTCTAAATAGCTCGATGACCTACGTTCACAACTGATTTTACAAAAGTTTGTTG
130 TAAGATCGCAACTTCTAAACAACTCGATGACCTACGTTCACAACTGATTTGACAAAAGTTAGTTG
44576364 TGCAAT
195 TGCAAT
* * * * *
44576370 CTATCCATCTTTGAGTTAACTGATTTAAGATCGCAACTCCTAAACAGCTTGATAACCTATGTTTA
1 CTATCCATCTTTGAGTTAACTGATTTAAGATCACAACTCATAAACAGCTCGACAACCTATGTTCA
* * *
44576435 CAGCTAATTTTACAAAGGTTAGTTGATTTAATATCTCAACCTATCCATATTTGAGTTAGTTGATT
66 CAGCTAATTTTACAAAGGTTAGCTGATTTAA-ATCACAACCTATCCATATTTGAGTTAGCTGATT
* * * * * *
44576500 TAAGATTGTAGC-TCTTAAACAACTCG-TGACCTACGTTCACGATTGATTTGACAAAGGTTAGTT
130 TAAGATCGCAACTTC-TAAACAACTCGATGACCTACGTTCACAACTGATTTGACAAAAGTTAGTT
44576563 G
194 G
44576564 ATTTAAGATC
Statistics
Matches: 331, Mismatches: 58, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
200 118 0.36
201 48 0.15
202 1 0.00
204 2 0.01
206 1 0.00
209 82 0.25
210 79 0.24
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (200 bp):
CTATCCATCTTTGAGTTAACTGATTTAAGATCACAACTCATAAACAGCTCGACAACCTATGTTCA
CAGCTAATTTTACAAAGGTTAGCTGATTTAAATCACAACCTATCCATATTTGAGTTAGCTGATTT
AAGATCGCAACTTCTAAACAACTCGATGACCTACGTTCACAACTGATTTGACAAAAGTTAGTTGT
GCAAT
Found at i:44576594 original size:305 final size:310
Alignment explanation
Indices: 44575932--44576611 Score: 829
Period size: 305 Copynumber: 2.2 Consensus size: 310
44575922 GCTGATTTTT
44575932 CAAAGGTTAGTTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAAC
1 CAAAGGTTAGTTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAAC
* * * *
44575997 TTCCGAATAGCTCGATGACCTACACTCACAGCCGATTTTACAAAGGTTAGATGATTTAATATTGC
66 TTCCAAATAGCTCGATGACCTACACTCACAACCGATTTTACAAAAGTT--ATG--TT-ATAGTGC
* * * *
44576062 AACATATTCATCTTTGAGGTAGCTGATTTAAGACCGCAACTTCTAAACAACTCAATGACCTACGT
126 AACATATCCATCTTTGAGGTAACTGATTTAAGACCGCAACTCCTAAACAACTCAATAACCTACGT
* * * *
44576127 TTAAGGTTGATTTTACAAAGGTTAGCTGATTTAAGATTGTAACATATTCATATTTGAGTTAGCTG
191 TTAAGGCTAATTTTACAAAGGTTAGCTGATTTAAGATTGCAACATATCCATATTTGAGTTAGCTG
* * * * * * *
44576192 ATTTAAGATCACAACTCATAAATAGCTCGACGACTTATGTTCGCGGTTGATTTTA
256 ATTTAAGATCACAACTCATAAACAACTCGACGACCTACGTTCACGATTGATTTGA
*
44576247 CAAAGGTTAGCTGATTTAA-ATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAAC
1 CAAAGGTTAGTTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAAC
* ** *
44576311 TTCTAAATAGCTCGATGACCTACGTTCACAACTGATTTTACAAAAGTT-TG-T-T-GTGCAATC-
66 TTCCAAATAGCTCGATGACCTACACTCACAACCGATTTTACAAAAGTTATGTTATAGTGCAA-CA
* * * ** *
44576371 TATCCATCTTTGAGTTAACTGATTTAAGATCGCAACTCCTAAACAGCTTGATAACCTATGTTTAC
130 TATCCATCTTTGAGGTAACTGATTTAAGACCGCAACTCCTAAACAACTCAATAACCTACGTTTA-
* * * *
44576436 A-GCTAATTTTACAAAGGTTAGTTGATTTAATATCT-CAACCTATCCATATTTGAGTTAGTTGAT
194 AGGCTAATTTTACAAAGGTTAGCTGATTTAAGAT-TGCAACATATCCATATTTGAGTTAGCTGAT
*** * * *
44576499 TTAAGATTGTAGCTCTTAAACAACTCG-TGACCTACGTTCACGATTGATTTGA
258 TTAAGATCACAACTCATAAACAACTCGACGACCTACGTTCACGATTGATTTGA
* * * *
44576551 CAAAGGTTAGTTGATTTAAGATCGCAACTTATCCATTTTTGAGTTAGCTGATTTAAGATCG
1 CAAAGGTTAGTTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCG
44576612 TGACTTTTAA
Statistics
Matches: 316, Mismatches: 45, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
304 37 0.12
305 168 0.53
306 4 0.01
308 1 0.00
311 2 0.01
314 86 0.27
315 18 0.06
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (310 bp):
CAAAGGTTAGTTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAAC
TTCCAAATAGCTCGATGACCTACACTCACAACCGATTTTACAAAAGTTATGTTATAGTGCAACAT
ATCCATCTTTGAGGTAACTGATTTAAGACCGCAACTCCTAAACAACTCAATAACCTACGTTTAAG
GCTAATTTTACAAAGGTTAGCTGATTTAAGATTGCAACATATCCATATTTGAGTTAGCTGATTTA
AGATCACAACTCATAAACAACTCGACGACCTACGTTCACGATTGATTTGA
Found at i:44581011 original size:59 final size:60
Alignment explanation
Indices: 44580884--44581014 Score: 175
Period size: 59 Copynumber: 2.3 Consensus size: 60
44580874 TATATTTTAT
* **
44580884 TATATATATAATATATGCATGCTTTGATTGGTTTAATGCATGTTGGAGTTTTGTATGAATA
1 TATATATATAATATATACATGCTTTGATTGGTTTAATGCATGTT-GAGTTTTGTAAAAATA
44580945 -A-ATATATAATATATACATGCTTTGATTGGTTTAATGCATGTT-AGTTTTG-AAAAAT-
1 TATATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTGAGTTTTGTAAAAATA
*
44581000 TATATAAAT-ATATAT
1 TATATATATAATATAT
44581015 GATTATATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
56 11 0.17
57 12 0.19
59 40 0.62
60 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (60 bp):
TATATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTGAGTTTTGTAAAAATA
Found at i:44589731 original size:41 final size:41
Alignment explanation
Indices: 44589672--44589753 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
44589662 AAGGTTCGGC
* *
44589672 TAGGGAAATGAAATGGAATACGTCATGAGACTTTTAGTAAA
1 TAGGGAAATGAAAGGGAATACGTCAAGAGACTTTTAGTAAA
*
44589713 TAGGGAAA-GAAAAGGGAATATGTCAAGAGACTTTTAGTAAA
1 TAGGGAAATG-AAAGGGAATACGTCAAGAGACTTTTAGTAAA
44589754 AAGAGGAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (41 bp):
TAGGGAAATGAAAGGGAATACGTCAAGAGACTTTTAGTAAA
Found at i:44589990 original size:41 final size:41
Alignment explanation
Indices: 44589945--44590026 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
44589935 AGAGATGGGG
*
44589945 AAAGAAATCATCAGGAAGATGGAGAAAAAACTGACTCTTTT
1 AAAGAAATCATCAGGAAGATAGAGAAAAAACTGACTCTTTT
* *
44589986 AAAGAAATCATCAGGAATATAGAGAGAAAACTGACTCTTTT
1 AAAGAAATCATCAGGAAGATAGAGAAAAAACTGACTCTTTT
44590027 TTTTCAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.23
Consensus pattern (41 bp):
AAAGAAATCATCAGGAAGATAGAGAAAAAACTGACTCTTTT
Found at i:44597711 original size:13 final size:13
Alignment explanation
Indices: 44597693--44597727 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
44597683 AAAACCCTAG
44597693 TTTTTCCTTTTCT
1 TTTTTCCTTTTCT
44597706 TTTTT-CTTTTCT
1 TTTTTCCTTTTCT
*
44597718 TCTTTCCTTT
1 TTTTTCCTTT
44597728 CCCCCTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCCTTTTCT
Found at i:44597816 original size:3 final size:3
Alignment explanation
Indices: 44597808--44597959 Score: 304
Period size: 3 Copynumber: 50.7 Consensus size: 3
44597798 TATATTAGTT
44597808 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
44597856 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
44597904 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
44597952 AAC AAC AA
1 AAC AAC AA
44597960 TAATAATAAT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 149 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:44598116 original size:28 final size:29
Alignment explanation
Indices: 44598080--44598139 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
44598070 GCTTTAATTT
44598080 AATTCAATTCATAAT-ATGATT-TTATAATA
1 AATTCAATT--TAATAATGATTATTATAATA
*
44598109 AATT-AATTTAATAATTATTATTATAATA
1 AATTCAATTTAATAATGATTATTATAATA
44598137 AAT
1 AAT
44598140 ATCTTTAGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.14
27 5 0.18
28 15 0.54
29 4 0.14
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (29 bp):
AATTCAATTTAATAATGATTATTATAATA
Found at i:44598420 original size:11 final size:11
Alignment explanation
Indices: 44598394--44598427 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
44598384 TATTTATTTC
*
44598394 ATAATATAA-A
1 ATAATATAATT
44598404 ATAATATAATT
1 ATAATATAATT
44598415 ATAATATAATT
1 ATAATATAATT
44598426 AT
1 AT
44598428 TATAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATAATATAATT
Found at i:44598429 original size:14 final size:16
Alignment explanation
Indices: 44598394--44598433 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
44598384 TATTTATTTC
*
44598394 ATAA-TATAAAATAAT
1 ATAATTATAATATAAT
44598409 ATAATTATAATATAAT
1 ATAATTATAATATAAT
44598425 -T-ATTATAAT
1 ATAATTATAAT
44598434 TTAACAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.35
15 5 0.22
16 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATTATAATATAAT
Found at i:44614022 original size:45 final size:46
Alignment explanation
Indices: 44613968--44614059 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 46
44613958 TTTTTGTTTT
* *
44613968 TCTTCCCCTAAGTCACAGTGTTAAAACTC-GGGGTGAGAAAATATG
1 TCTTCCCCTAAGTCACAGCGTTAAAACTCAGGAGTGAGAAAATATG
* *
44614013 TCTTTCCCTAAGTGACAGCGTTAAAACTCAGGAGTGAGAAAATATG
1 TCTTCCCCTAAGTCACAGCGTTAAAACTCAGGAGTGAGAAAATATG
44614059 T
1 T
44614060 AGTGCAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 26 0.62
46 16 0.38
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (46 bp):
TCTTCCCCTAAGTCACAGCGTTAAAACTCAGGAGTGAGAAAATATG
Found at i:44614774 original size:31 final size:31
Alignment explanation
Indices: 44614713--44614774 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
44614703 TATAAATATG
* * *
44614713 AAACTTTTATTATGGTTCAAATGTGTACATT
1 AAACTTTTATTATGATTCAAATATGCACATT
*
44614744 AAACTTTTATTTTGATTC-AATCATGCACATT
1 AAACTTTTATTATGATTCAAAT-ATGCACATT
44614775 TAAAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (31 bp):
AAACTTTTATTATGATTCAAATATGCACATT
Found at i:44615890 original size:11 final size:11
Alignment explanation
Indices: 44615874--44615915 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
44615864 TTTTATAATA
44615874 TATATTTTTCT
1 TATATTTTTCT
44615885 TATATTTTTC-
1 TATATTTTTCT
* *
44615895 TAAATTTTTTT
1 TATATTTTTCT
44615906 TATACTTTTT
1 TATA-TTTTT
44615916 AAACTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 8 0.31
11 13 0.50
12 5 0.19
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTTTTCT
Found at i:44615903 original size:21 final size:20
Alignment explanation
Indices: 44615877--44615924 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
44615867 TATAATATAT
*
44615877 ATTTTTCTTATATTTTTCTAA
1 ATTTTTCTTATACTTTT-TAA
*
44615898 ATTTTTTTTATACTTTTTAA
1 ATTTTTCTTATACTTTTTAA
44615918 ACTTTTT
1 A-TTTTT
44615925 ACCTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTCTTATACTTTTTAA
Found at i:44620067 original size:26 final size:26
Alignment explanation
Indices: 44620037--44620111 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
44620027 ACGAAATTTC
* *
44620037 TCAAAATTTTATCGAGAGTAAAATCG
1 TCAAAATTTTACCAAGAGTAAAATCG
* *
44620063 TCAAAATTTTACCAAGGGTAAAATTG
1 TCAAAATTTTACCAAGAGTAAAATCG
* *
44620089 TCAAAAACTTTACTAAG-GTAAAA
1 TC-AAAATTTTACCAAGAGTAAAA
44620112 ATGGGATGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 30 0.71
27 12 0.29
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (26 bp):
TCAAAATTTTACCAAGAGTAAAATCG
Found at i:44625091 original size:34 final size:34
Alignment explanation
Indices: 44625053--44625118 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
44625043 TAATATGAGC
44625053 ATTTGGTGCACTGGATGGATTAAG-TCATACGAAT
1 ATTTGGTGCACTGGATGGATT-AGCTCATACGAAT
**
44625087 ATTTGGTGTGCTGGATGGATTAGCTCATACGA
1 ATTTGGTGCACTGGATGGATTAGCTCATACGA
44625119 GCATCTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.07
34 27 0.93
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (34 bp):
ATTTGGTGCACTGGATGGATTAGCTCATACGAAT
Found at i:44625135 original size:33 final size:34
Alignment explanation
Indices: 44625063--44625137 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
44625053 ATTTGGTGCA
* *
44625063 CTGGATGGATTAAGTCATACGAATATTTGGTGTG
1 CTGGATGGATTAAGTCATACGAACATCTGGTGTG
*
44625097 CTGGATGGATT-AGCTCATACGAGCATCT-GTGTG
1 CTGGATGGATTAAG-TCATACGAACATCTGGTGTG
*
44625130 TTGGATGG
1 CTGGATGG
44625138 TTGACCGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 14 0.39
34 22 0.61
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (34 bp):
CTGGATGGATTAAGTCATACGAACATCTGGTGTG
Found at i:44630909 original size:30 final size:30
Alignment explanation
Indices: 44630873--44630932 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
44630863 TATGTTACAA
44630873 TGTTGCATCCTCAAGTTTGAAAGTAGTTAG
1 TGTTGCATCCTCAAGTTTGAAAGTAGTTAG
44630903 TGTTGCATCCTCAAGTTTGAAAGTAGTTAG
1 TGTTGCATCCTCAAGTTTGAAAGTAGTTAG
44630933 GAAAGATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (30 bp):
TGTTGCATCCTCAAGTTTGAAAGTAGTTAG
Found at i:44633232 original size:25 final size:25
Alignment explanation
Indices: 44633199--44633277 Score: 113
Period size: 25 Copynumber: 3.2 Consensus size: 25
44633189 TCAGTGAGTT
*
44633199 ACACAGCCTGGCACACGGGCGTGTC
1 ACACAGCCTGGCACACGGGCGTGTG
* *
44633224 ACACGGCCTGGCGCACGGGCGTGTG
1 ACACAGCCTGGCACACGGGCGTGTG
* *
44633249 ACATAGCCTGGCACACGGGTGTGTG
1 ACACAGCCTGGCACACGGGCGTGTG
44633274 ACAC
1 ACAC
44633278 GGCCGTGTGG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.19, C:0.32, G:0.35, T:0.14
Consensus pattern (25 bp):
ACACAGCCTGGCACACGGGCGTGTG
Found at i:44634105 original size:18 final size:18
Alignment explanation
Indices: 44634082--44634116 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
44634072 AAAAATATAA
44634082 AGAAAAGACAAGTCAATT
1 AGAAAAGACAAGTCAATT
44634100 AGAAAAGACAAGTCAAT
1 AGAAAAGACAAGTCAAT
44634117 ACTTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.14
Consensus pattern (18 bp):
AGAAAAGACAAGTCAATT
Found at i:44643128 original size:30 final size:30
Alignment explanation
Indices: 44643092--44643152 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
44643082 CATTTTAAGT
44643092 TATCCCATTATTTGAAGGGTCCTTGGAGGA
1 TATCCCATTATTTGAAGGGTCCTTGGAGGA
44643122 TATCCCATTATTTGAAGGGTCCTTGGAGGA
1 TATCCCATTATTTGAAGGGTCCTTGGAGGA
44643152 T
1 T
44643153 CATATTGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (30 bp):
TATCCCATTATTTGAAGGGTCCTTGGAGGA
Found at i:44643448 original size:15 final size:16
Alignment explanation
Indices: 44643423--44643452 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44643413 ATGAATAGCC
44643423 AGAGCAACATAGATAT
1 AGAGCAACATAGATAT
44643439 AGAG-AACATAGATA
1 AGAGCAACATAGATA
44643453 AGACAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.17
Consensus pattern (16 bp):
AGAGCAACATAGATAT
Found at i:44650237 original size:77 final size:77
Alignment explanation
Indices: 44650107--44650261 Score: 283
Period size: 77 Copynumber: 2.0 Consensus size: 77
44650097 AGAACTGCCT
*
44650107 TTCGAAGATGTACACTTGCATTCTGTCAAAATTAGGTCACACCATTAAAATTGGCGATAAGAATT
1 TTCGAAGATGTACACTTGCATTCTGTCAAAATTAGGTCACACAATTAAAATTGGCGATAAGAATT
*
44650172 GACACATTATAG
66 GACACATCATAG
*
44650184 TTCGAAGATGTACACTTGCATTCTGTCAAAATTAGGTCACACAATTAACATTGGCGATAAGAATT
1 TTCGAAGATGTACACTTGCATTCTGTCAAAATTAGGTCACACAATTAAAATTGGCGATAAGAATT
44650249 GACACATCATAG
66 GACACATCATAG
44650261 T
1 T
44650262 AAAAAAATTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (77 bp):
TTCGAAGATGTACACTTGCATTCTGTCAAAATTAGGTCACACAATTAAAATTGGCGATAAGAATT
GACACATCATAG
Found at i:44655582 original size:2 final size:2
Alignment explanation
Indices: 44655577--44655616 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
44655567 TTCATATGGA
44655577 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
44655617 TTCCAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44661000 original size:20 final size:21
Alignment explanation
Indices: 44660977--44661024 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
44660967 TATAAAAATT
44660977 ATAAAAATTA-TTAAATTTTA
1 ATAAAAATTATTTAAATTTTA
*
44660997 ATAAAAGTTATTTAAATTTTA
1 ATAAAAATTATTTAAATTTTA
*
44661018 TTAAAAA
1 ATAAAAA
44661025 ATATAAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAAAAATTATTTAAATTTTA
Found at i:44661297 original size:9 final size:9
Alignment explanation
Indices: 44661277--44661425 Score: 52
Period size: 10 Copynumber: 15.6 Consensus size: 9
44661267 TTCTTACGAC
*
44661277 TTTATAAAT
1 TTTATAATT
44661286 TTTATAATTT
1 TTTATAA-TT
*
44661296 TTTCTATATT
1 TTTATA-ATT
*
44661306 TCTAT-ATAT
1 TTTATAAT-T
*
44661315 TTTATGATTTT
1 TTTAT-A-ATT
*
44661326 TTTATGATTT
1 TTTAT-AATT
*
44661336 TTTATACTTT
1 TTTATA-ATT
*
44661346 TTTCTAATT
1 TTTATAATT
*
44661355 TTTAATAAAT
1 TTT-ATAATT
44661365 TTTA-AATGT
1 TTTATAAT-T
*
44661374 TTTTTATATAT
1 TTTATA-AT-T
*
44661385 TTTA-AAAT
1 TTTATAATT
*
44661393 TTAATAATT
1 TTTATAATT
*
44661402 TTTATAACT
1 TTTATAATT
*
44661411 TTTATTGATT
1 TTTA-TAATT
44661421 TTTAT
1 TTTAT
44661426 TTTTATTTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
8 8 0.08
9 39 0.37
10 43 0.41
11 15 0.14
12 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:44661311 original size:29 final size:29
Alignment explanation
Indices: 44661257--44661335 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
44661247 TCTTTACATT
* * * *
44661257 TTTTGTAATTTTCTTACGACTT-TATAAA
1 TTTTATAATTTTTTTATGATTTCTATAAA
*
44661285 TTTTATAATTTTTTCTAT-ATTTCTATATA
1 TTTTATAATTTTTT-TATGATTTCTATAAA
*
44661314 TTTTATGATTTTTTTATGATTT
1 TTTTATAATTTTTTTATGATTT
44661336 TTTATACTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTTATAATTTTTTTATGATTTCTATAAA
Found at i:44661339 original size:21 final size:20
Alignment explanation
Indices: 44661285--44661357 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
44661275 ACTTTATAAA
*
44661285 TTTTATAATTTTTTCTA-TAT
1 TTTTATAATTTTTTATACT-T
* * *
44661305 TTCTAT-ATATTTTATGATTT
1 TTTTATAATTTTTTAT-ACTT
*
44661325 TTTTATGATTTTTTATACTT
1 TTTTATAATTTTTTATACTT
*
44661345 TTTTCTAATTTTT
1 TTTTATAATTTTT
44661358 AATAAATTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 7 0.17
20 26 0.62
21 9 0.21
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTATAATTTTTTATACTT
Found at i:44661340 original size:10 final size:11
Alignment explanation
Indices: 44661314--44661338 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44661304 TTTCTATATA
44661314 TTTTATGATTT
1 TTTTATGATTT
44661325 TTTTATGATTT
1 TTTTATGATTT
44661336 TTT
1 TTT
44661339 ATACTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTATGATTT
Found at i:44661356 original size:10 final size:10
Alignment explanation
Indices: 44661285--44661367 Score: 53
Period size: 10 Copynumber: 8.3 Consensus size: 10
44661275 ACTTTATAAA
44661285 TTTTATAATT
1 TTTTATAATT
*
44661295 TTTTCT-ATAT
1 TTTTATAAT-T
* *
44661305 TTCTAT-ATA
1 TTTTATAATT
*
44661314 TTTTATGATTT
1 TTTTAT-AATT
*
44661325 TTTTATGATT
1 TTTTATAATT
*
44661335 TTTTATACTT
1 TTTTATAATT
*
44661345 TTTTCTAATT
1 TTTTATAATT
* *
44661355 TTTAATAAAT
1 TTTTATAATT
44661365 TTT
1 TTT
44661368 AAATGTTTTT
Statistics
Matches: 54, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
9 7 0.13
10 40 0.74
11 7 0.13
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:44661376 original size:20 final size:20
Alignment explanation
Indices: 44661353--44661390 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44661343 TTTTTTCTAA
44661353 TTTTTAATAAATTTTAAATG
1 TTTTTAATAAATTTTAAATG
* *
44661373 TTTTTTATATATTTTAAA
1 TTTTTAATAAATTTTAAA
44661391 ATTTAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTTAATAAATTTTAAATG
Found at i:44661377 original size:50 final size:49
Alignment explanation
Indices: 44661277--44661394 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 49
44661267 TTCTTACGAC
* * *
44661277 TTTATAAATTTTATAATTTTTTCTATATTTCTATATATTTTATGATTTT
1 TTTATATATTTTATAATTTTTTCTATATTTCTATAAATTTTATAATTTT
* * *
44661326 TTTATGATTTTTTATACTTTTTTCTA-ATTTTTAATAAATTTTA-AATGTTT
1 TTTAT-ATATTTTATAATTTTTTCTATATTTCT-ATAAATTTTATAAT-TTT
*
44661376 TTTATATATTTTAAAATTT
1 TTTATATATTTTATAATTT
44661395 AATAATTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
49 23 0.40
50 34 0.60
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (49 bp):
TTTATATATTTTATAATTTTTTCTATATTTCTATAAATTTTATAATTTT
Found at i:44667489 original size:26 final size:26
Alignment explanation
Indices: 44667460--44667512 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
44667450 CTTTGAGTTA
44667460 GCTTAAAAGCATTCATTCATTAGGTC
1 GCTTAAAAGCATTCATTCATTAGGTC
44667486 GCTTAAAAGCATTCATTCATTAGGTC
1 GCTTAAAAGCATTCATTCATTAGGTC
44667512 G
1 G
44667513 TGTATGCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (26 bp):
GCTTAAAAGCATTCATTCATTAGGTC
Found at i:44669736 original size:91 final size:91
Alignment explanation
Indices: 44669579--44669759 Score: 328
Period size: 91 Copynumber: 2.0 Consensus size: 91
44669569 GTGTTTTATG
44669579 ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGCGAAAACTAGC
1 ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGCGAAAACTAGC
*
44669644 AAAATGGCTTAATCGGTAAAAATACT
66 AAAAGGGCTTAATCGGTAAAAATACT
*
44669670 ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAA-TGAG
1 ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGCGAAAACT-AG
44669734 CAAAAGGGCTTAATCGGTAAAAATAC
65 CAAAAGGGCTTAATCGGTAAAAATAC
44669760 CTAATAGTCA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
90 1 0.01
91 86 0.99
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (91 bp):
ATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGCGAAAACTAGC
AAAAGGGCTTAATCGGTAAAAATACT
Found at i:44670413 original size:46 final size:46
Alignment explanation
Indices: 44670357--44670532 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
44670347 TGGTTGAGCA
*
44670357 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
44670403 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
44670450 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
44670496 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44670533 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:44670513 original size:93 final size:93
Alignment explanation
Indices: 44670354--44670524 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
44670344 GGATGGTTGA
* *
44670354 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44670419 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
44670447 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44670512 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44670525 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:44693816 original size:27 final size:27
Alignment explanation
Indices: 44693747--44693817 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
44693737 TTAATTATGG
* *
44693747 TTTTAATGTATTAAATTTACACAATTATA
1 TTTTAATGTATT-AA-TCAAACAATTATA
* *
44693776 TTTTTAT-TATTTAATCAAACATTTATA
1 TTTTAATGTA-TTAATCAAACAATTATA
44693803 TTTTAATGTATTAAT
1 TTTTAATGTATTAAT
44693818 GTTAAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 21 0.60
28 6 0.17
29 8 0.23
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (27 bp):
TTTTAATGTATTAATCAAACAATTATA
Found at i:44698023 original size:22 final size:22
Alignment explanation
Indices: 44697995--44698040 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
44697985 TTTTCTACTT
*
44697995 TTGTTTTACTGTCATTTTGTTA
1 TTGTTTTACTGTCATTTTGCTA
*
44698017 TTGTTTTGCTGTCATTTTGCTA
1 TTGTTTTACTGTCATTTTGCTA
44698039 TT
1 TT
44698041 ATACTGCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.11, G:0.15, T:0.63
Consensus pattern (22 bp):
TTGTTTTACTGTCATTTTGCTA
Found at i:44698048 original size:22 final size:22
Alignment explanation
Indices: 44698003--44698057 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
44697993 TTTTGTTTTA
* * **
44698003 CTGTCATTTTGTTATTGTTTTG
1 CTGTCATTTTGCTATTATACTG
44698025 CTGTCATTTTGCTATTATACTG
1 CTGTCATTTTGCTATTATACTG
* *
44698047 CTATTATTTTG
1 CTGTCATTTTG
44698058 TTGTTATTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.58
Consensus pattern (22 bp):
CTGTCATTTTGCTATTATACTG
Found at i:44698190 original size:16 final size:18
Alignment explanation
Indices: 44698153--44698191 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
44698143 ATCTTAACAT
*
44698153 TATTTAATGTTTTTAGTA
1 TATTTAATGTTATTAGTA
44698171 TATTTAATG-TATTA-TA
1 TATTTAATGTTATTAGTA
44698187 TATTT
1 TATTT
44698192 TAAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 4 0.20
18 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (18 bp):
TATTTAATGTTATTAGTA
Found at i:44701305 original size:42 final size:42
Alignment explanation
Indices: 44701259--44701350 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
44701249 GTCACCCCTT
* *
44701259 AGTTATCGAAGACA-GTCAAGGTCAAAGTCTAGATCACCAATC
1 AGTTATAGAAGA-AGGTCAAGGTCAAAGTCAAGATCACCAATC
** * *
44701301 AGTTATAGGCGAAGGTCAAGGTCCATGTCAAGATCACCAATC
1 AGTTATAGAAGAAGGTCAAGGTCAAAGTCAAGATCACCAATC
*
44701343 AGCTATAG
1 AGTTATAG
44701351 GCAAAGGAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (42 bp):
AGTTATAGAAGAAGGTCAAGGTCAAAGTCAAGATCACCAATC
Found at i:44701351 original size:42 final size:42
Alignment explanation
Indices: 44701273--44701357 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
44701263 ATCGAAGACA
* * *
44701273 GTCAAGGTCAAAGTCTAGATCACCAATCAGTTATAGGCGAAG
1 GTCAAGGTCAAAGTCAAGATCACCAATCAGCTATAGGCAAAG
* *
44701315 GTCAAGGTCCATGTCAAGATCACCAATCAGCTATAGGCAAAG
1 GTCAAGGTCAAAGTCAAGATCACCAATCAGCTATAGGCAAAG
44701357 G
1 G
44701358 AGGAGGTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (42 bp):
GTCAAGGTCAAAGTCAAGATCACCAATCAGCTATAGGCAAAG
Found at i:44710093 original size:49 final size:49
Alignment explanation
Indices: 44709958--44710104 Score: 126
Period size: 49 Copynumber: 3.0 Consensus size: 49
44709948 GCTCGGAAAT
* * * *
44709958 GATGACTATTAGAATATGTACATACTACCACCTCGGGTTGCCCGACAAT
1 GATGACTATTAGCATATGTACATTCTACCACCTTGGGTTGCCCGACAAC
* * *
44710007 GAT-AGCT-TTCA-CA-ATCTA-TTTACT-CCATCATCCTGGGTTGCCCGACAAC
1 GATGA-CTATT-AGCATATGTACATT-CTACCA-C--CTTGGGTTGCCCGACAAC
*
44710056 GATGACTATTAGCATATGTACATTCTACCACCTTGGGTTGCTCGACAAC
1 GATGACTATTAGCATATGTACATTCTACCACCTTGGGTTGCCCGACAAC
44710105 TATGGTTTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
46 4 0.05
47 7 0.09
48 4 0.05
49 43 0.57
50 5 0.07
51 7 0.09
52 5 0.07
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (49 bp):
GATGACTATTAGCATATGTACATTCTACCACCTTGGGTTGCCCGACAAC
Found at i:44712177 original size:41 final size:41
Alignment explanation
Indices: 44712132--44712269 Score: 138
Period size: 41 Copynumber: 3.4 Consensus size: 41
44712122 AGTGCCAAAG
* * * *
44712132 CATAGCCGAATCTATTATAATCTTGCACACTAAGTGCCTTT
1 CATAGCCGAAGCTATCATAATCTCGAACACTAAGTGCCTTT
** *
44712173 CATAGTAGAAGCTATCATAGTCTCGAACACTAAGTGCCTTT
1 CATAGCCGAAGCTATCATAATCTCGAACACTAAGTGCCTTT
* *
44712214 CATAGCCGAAGCTATC-TCAGTCTC-ACACACTAAGTGCCATAT
1 CATAGCCGAAGCTATCAT-AATCTCGA-ACACTAAGTGCC-TTT
*
44712256 -ATAGCCAAAGCTAT
1 CATAGCCGAAGCTAT
44712270 TCCGATTTGC
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 2 0.02
41 79 0.95
42 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (41 bp):
CATAGCCGAAGCTATCATAATCTCGAACACTAAGTGCCTTT
Found at i:44713386 original size:19 final size:19
Alignment explanation
Indices: 44713362--44713401 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
44713352 AAAATATCAT
44713362 ATTAATTTTAA-TTAATTTG
1 ATTAA-TTTAATTTAATTTG
44713381 ATTAATTTAATTTAATTTG
1 ATTAATTTAATTTAATTTG
44713400 AT
1 AT
44713402 CAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTAATTTAATTTAATTTG
Found at i:44718123 original size:48 final size:48
Alignment explanation
Indices: 44718050--44718318 Score: 362
Period size: 48 Copynumber: 5.6 Consensus size: 48
44718040 TAAAGTACCA
* * * *
44718050 ATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAAGCACATATATCATCGCCG
* ** * *
44718098 ATGCCATGTCCCAGACATGGCCTTACACTGGCACACATATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCG
* *
44718146 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCG
*
44718194 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCG
** * *
44718242 ATGCCATACCCCAAACATGGTCTTACAC-AGACACATATATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACAAG-CACATATATCATCGCCG
44718290 ATGCCATGTCCCAGACATGGTCTTACACA
1 ATGCCATGTCCCAGACATGGTCTTACACA
44718319 GGTACATTTA
Statistics
Matches: 195, Mismatches: 23, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
47 3 0.02
48 192 0.98
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCGCCG
Found at i:44718310 original size:144 final size:144
Alignment explanation
Indices: 44718050--44718325 Score: 419
Period size: 144 Copynumber: 1.9 Consensus size: 144
44718040 TAAAGTACCA
* * * ** *
44718050 ATGCCATGTCCCCGACATGGTCTTACATGAATCCACATATCATCGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATCAAGCCACATATCATCGCCGATGCCATACCCCAAACA
* *
44718115 TGGCCTTACACTGGCACACATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCAC
66 TGGCCTTACACAGACACACATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCAC
44718180 ATATATCATCGTCG
131 ATATATCATCGTCG
* *
44718194 ATGCCATGTCCCAGACATGGTCTTACA-CAAGCACATATATCATCGCTGATGCCATACCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACATCAAGC-CACATATCATCGCCGATGCCATACCCCAAAC
* * *
44718258 ATGGTCTTACACAGACACATATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGTA
65 ATGGCCTTACACAGACACACATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCA
44718323 CAT
130 CAT
44718326 TTAGCACAGT
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
143 3 0.03
144 115 0.97
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.24
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACATCAAGCCACATATCATCGCCGATGCCATACCCCAAACA
TGGCCTTACACAGACACACATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCAC
ATATATCATCGTCG
Found at i:44728827 original size:40 final size:40
Alignment explanation
Indices: 44728783--44728861 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
44728773 TTACAGTACC
44728783 ACTTGGTGTGTAGGGCTGGATGGGTCAATTTTATCCCCAT
1 ACTTGGTGTGTAGGGCTGGATGGGTCAATTTTATCCCCAT
* *
44728823 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCCCA
1 ACTTGGTGTGTAGGGCTGGATGGGTCAATTTTATCCCCA
44728862 CATGGTGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.34
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTGGATGGGTCAATTTTATCCCCAT
Found at i:44729866 original size:30 final size:30
Alignment explanation
Indices: 44729832--44729889 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
44729822 CTTAAACAAC
*
44729832 TCTCAAGTTCCTATTTTTAGAGAAATTTTA
1 TCTCAAGTGCCTATTTTTAGAGAAATTTTA
44729862 TCTCAAGTGCCTATTTTTAGAGAAATTT
1 TCTCAAGTGCCTATTTTTAGAGAAATTT
44729890 CATGCTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (30 bp):
TCTCAAGTGCCTATTTTTAGAGAAATTTTA
Found at i:44735418 original size:39 final size:39
Alignment explanation
Indices: 44735363--44735475 Score: 111
Period size: 39 Copynumber: 2.8 Consensus size: 39
44735353 TATAATAAGT
44735363 CACCGGCATAAAGCCTGCTAGGCCTAAGCCTGAATCT-CA
1 CACCGGCA-AAAGCCTGCTAGGCCTAAGCCTGAATCTACA
* * * * * * *
44735402 CACCGGCACAAGGCCTGCTAGACTCGAAGTCTGATTTTATA
1 CACCGGCA-AAAGCCTGCTAGGC-CTAAGCCTGAATCTACA
*
44735443 CACCGGCAATAAGCCTGCTAGGCATAAGCCTGA
1 CACCGGCAA-AAGCCTGCTAGGCCTAAGCCTGA
44735476 TTTAATTCAT
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
39 20 0.34
40 18 0.31
41 20 0.34
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.19
Consensus pattern (39 bp):
CACCGGCAAAAGCCTGCTAGGCCTAAGCCTGAATCTACA
Found at i:44738310 original size:18 final size:17
Alignment explanation
Indices: 44738266--44738314 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
44738256 TCAGTAATAA
44738266 CCAATATTCAGTATCAT
1 CCAATATTCAGTATCAT
*
44738283 CCAGACATTCAGTAGT-AGT
1 CCA-ATATTCAGTA-TCA-T
44738302 CCAATATTCAGTA
1 CCAATATTCAGTA
44738315 ACAATCAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (17 bp):
CCAATATTCAGTATCAT
Found at i:44738378 original size:18 final size:18
Alignment explanation
Indices: 44738355--44738396 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
44738345 AGTCAGTCAA
44738355 CAGTAATAATCAGTTAAT
1 CAGTAATAATCAGTTAAT
* *
44738373 CAGTAATAATCATTTAGT
1 CAGTAATAATCAGTTAAT
44738391 CAGTAA
1 CAGTAA
44738397 CAGTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (18 bp):
CAGTAATAATCAGTTAAT
Found at i:44738622 original size:59 final size:59
Alignment explanation
Indices: 44738555--44738689 Score: 168
Period size: 59 Copynumber: 2.3 Consensus size: 59
44738545 TAACGGTAAT
* * * * *
44738555 AGTAACAGTAACAGTAGCAGTA-CGATATACAGAATACCTCA-CTGGAACAAAT-TCGGAAC
1 AGTAACAGTAACAGTA-AAATAGCGATACACAAAATACCTCATC-AGAACAAATCT-GGAAC
*
44738614 AGTAACAGTAACAGTAAAATAGCGGTACACAAAATACCTCATCAGAACAAATCTGGAAC
1 AGTAACAGTAACAGTAAAATAGCGATACACAAAATACCTCATCAGAACAAATCTGGAAC
44738673 AGTAACAGTAACAGTAA
1 AGTAACAGTAACAGTAA
44738690 GGTACGGAGT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
58 3 0.04
59 62 0.93
60 2 0.03
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (59 bp):
AGTAACAGTAACAGTAAAATAGCGATACACAAAATACCTCATCAGAACAAATCTGGAAC
Found at i:44739067 original size:24 final size:25
Alignment explanation
Indices: 44739039--44739093 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
44739029 CAATTTCCAC
*
44739039 ATCAATCACATATATC-CATAT-AA
1 ATCAATCAAATATATCACATATCAA
*
44739062 ATTCAAT-AAATTTATCACATATCAA
1 A-TCAATCAAATATATCACATATCAA
44739087 ATCAATC
1 ATCAATC
44739094 CATTTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 8 0.31
24 15 0.58
25 3 0.12
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (25 bp):
ATCAATCAAATATATCACATATCAA
Found at i:44740190 original size:14 final size:15
Alignment explanation
Indices: 44740156--44740202 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
44740146 ATAAATATCT
44740156 TATAATATAATTATAA
1 TATAAT-TAATTATAA
44740172 T-TAATTAATT-TAA
1 TATAATTAATTATAA
*
44740185 TATAATTTATTACTAA
1 TATAATTAATTA-TAA
44740201 TA
1 TA
44740203 AATATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.15
14 13 0.48
15 4 0.15
16 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TATAATTAATTATAA
Found at i:44741790 original size:46 final size:46
Alignment explanation
Indices: 44741672--44741802 Score: 138
Period size: 46 Copynumber: 2.8 Consensus size: 46
44741662 ATTTTTGCCC
* * ***
44741672 AGGTTCCCAGCTCTTGCATATGTTGCGGACTAAAGAATACGGATTT
1 AGGTTCCCAACTCTTGCATATGTTGCGGACTAGAGAATAAAAATTT
* * * * *
44741718 AGGTTCCCATC-CTCTGTATTTGTTGCGGATTTGAGAATAAAAATTT
1 AGGTTCCCAACTCT-TGCATATGTTGCGGACTAGAGAATAAAAATTT
* *
44741764 AGGTTCCCAACTCTTGCATATATTGCGGACTGGAGAATA
1 AGGTTCCCAACTCTTGCATATGTTGCGGACTAGAGAATA
44741803 CGAAATATTA
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
45 2 0.03
46 64 0.94
47 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (46 bp):
AGGTTCCCAACTCTTGCATATGTTGCGGACTAGAGAATAAAAATTT
Found at i:44743195 original size:21 final size:21
Alignment explanation
Indices: 44743141--44743188 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
44743131 AAACAAGGGT
44743141 ACACGCCCGTGTGAAAGAGCA
1 ACACGCCCGTGTGAAAGAGCA
*
44743162 ACACGCCCGTGTGAAAGGGCA
1 ACACGCCCGTGTGAAAGAGCA
44743183 ACACGC
1 ACACGC
44743189 TTGTGTGGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.29, T:0.08
Consensus pattern (21 bp):
ACACGCCCGTGTGAAAGAGCA
Found at i:44743645 original size:30 final size:30
Alignment explanation
Indices: 44743604--44743661 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44743594 AAATCACATT
* * * *
44743604 TTTTGCAAAATGTCTATTTTTCCCCTAGAC
1 TTTTACAAAATGACCATTTTACCCCTAGAC
44743634 TTTTACAAAATGACCATTTTACCCCTAG
1 TTTTACAAAATGACCATTTTACCCCTAG
44743662 GCTCAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (30 bp):
TTTTACAAAATGACCATTTTACCCCTAGAC
Found at i:44748843 original size:18 final size:18
Alignment explanation
Indices: 44748820--44748855 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44748810 TTCTAGGATG
44748820 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
44748838 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
44748856 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:44753734 original size:48 final size:50
Alignment explanation
Indices: 44753662--44753869 Score: 190
Period size: 46 Copynumber: 4.4 Consensus size: 50
44753652 AAGCTGACGC
* *
44753662 CATGTCCCAGACA-GATCTTGCACTAACT-T-GTATATCTCGAGGCTGATG
1 CATGTCCCAGACATG-TCTTACACTAGCTCTCGTATATCTCGAGGCTGATG
* *
44753710 CATGTCCCAGACATGTCTTACACTAGCTCTCG--T-T-TCAAAGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTATATCTCGAGGCTGATG
* * * * *
44753756 CATGTCCCATACATGTCTTACACT-G-GCTGGTATATCCCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTATATCTCGAGGCTGATG
* * * *
44753804 CATATCCCAGTCATGTCTCACACTAGCTCTCGTA-ATAT---GGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTATATCTCGAGGCTGATG
*
44753850 CATGTCCCAGACATATCTTA
1 CATGTCCCAGACATGTCTTA
44753870 TACTGACACA
Statistics
Matches: 127, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
44 3 0.02
45 1 0.01
46 57 0.45
47 2 0.02
48 53 0.42
49 5 0.04
50 6 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (50 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTATATCTCGAGGCTGATG
Found at i:44753797 original size:94 final size:94
Alignment explanation
Indices: 44753652--44753874 Score: 268
Period size: 94 Copynumber: 2.4 Consensus size: 94
44753642 GACACACAAC
* * * ** * * * *
44753652 AAGCTGACGCCATGTCCCAGACAGATCTTGCACTAACTTGTATATCTCGAGGCTGATGCATGTCC
1 AAGCTGATG-CATGTCCCAGACATATCTTACACTGGCTGGTATATCCCGAGGCCGATGCATATCC
* *
44753717 CAGACATGTCTTACACTAGCTCTCGT-TTCA
65 CAGACATGTCTCACACTAGCTCTCGTAAT-A
* *
44753747 AAGCTGATGCATGTCCCATACATGTCTTACACTGGCTGGTATATCCCGAGGCCGATGCATATCCC
1 AAGCTGATGCATGTCCCAGACATATCTTACACTGGCTGGTATATCCCGAGGCCGATGCATATCCC
*
44753812 AGTCATGTCTCACACTAGCTCTCGTAATA
66 AGACATGTCTCACACTAGCTCTCGTAATA
** *
44753841 TGGCTGATGCATGTCCCAGACATATCTTATACTG
1 AAGCTGATGCATGTCCCAGACATATCTTACACTG
44753875 ACACACGTAT
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
94 99 0.92
95 9 0.08
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
AAGCTGATGCATGTCCCAGACATATCTTACACTGGCTGGTATATCCCGAGGCCGATGCATATCCC
AGACATGTCTCACACTAGCTCTCGTAATA
Found at i:44768394 original size:3 final size:3
Alignment explanation
Indices: 44768386--44768411 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44768376 TTACATGTAC
44768386 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
44768412 TCAAGAAAGG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:44769222 original size:15 final size:15
Alignment explanation
Indices: 44769202--44769239 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
44769192 AACACCACGA
44769202 AAGGCAAAGCACCTG
1 AAGGCAAAGCACCTG
44769217 AAGGCAAAGCACCTG
1 AAGGCAAAGCACCTG
44769232 AAGGCAAA
1 AAGGCAAA
44769240 TAATTACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.24, G:0.26, T:0.05
Consensus pattern (15 bp):
AAGGCAAAGCACCTG
Found at i:44771374 original size:18 final size:18
Alignment explanation
Indices: 44771353--44771387 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44771343 TTACAATATT
*
44771353 ATTACTATTTATTTTTAA
1 ATTACAATTTATTTTTAA
*
44771371 ATTAGAATTTATTTTTA
1 ATTACAATTTATTTTTA
44771388 TTGTTTTGAG
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:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTACAATTTATTTTTAA
Found at i:44771463 original size:17 final size:17
Alignment explanation
Indices: 44771439--44771478 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
44771429 TTTTATTCCA
* *
44771439 ATTTTTTTAAGAAGTTAT
1 ATTTTTTAAAAAAGTT-T
44771457 ATTTTTTAAAAAAGTTT
1 ATTTTTTAAAAAAGTTT
44771474 ATTTT
1 ATTTT
44771479 AGTTTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
ATTTTTTAAAAAAGTTT
Found at i:44780983 original size:26 final size:26
Alignment explanation
Indices: 44780946--44781029 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
44780936 TGATACAAAT
* *
44780946 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
44780972 TGATAATGGGTTAGATAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
44780998 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
44781024 TGATAA
1 TGATAA
44781030 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:44783063 original size:137 final size:137
Alignment explanation
Indices: 44782817--44783788 Score: 1899
Period size: 137 Copynumber: 7.1 Consensus size: 137
44782807 GAGTAGTCTC
44782817 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44782882 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44782947 ACTGTTA
131 ACTGTTA
44782954 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44783019 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44783084 ACTGTTA
131 ACTGTTA
44783091 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44783156 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44783221 ACTGTTA
131 ACTGTTA
44783228 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44783293 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44783358 ACTGTTA
131 ACTGTTA
44783365 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44783430 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44783495 ACTGTTA
131 ACTGTTA
44783502 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44783567 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44783632 ACTGTTA
131 ACTGTTA
44783639 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
44783704 TATTATCTGAATAAGGGGCTAAGACCAAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44783769 ACTGTTA
131 ACTGTTA
**
44783776 CCTGAATGGGCTT
1 CCCAAATGGGCTT
44783789 AGGCCCAATA
Statistics
Matches: 830, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 830 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:44786970 original size:18 final size:18
Alignment explanation
Indices: 44786944--44786982 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44786934 CCCGAGAAAC
*
44786944 TTTATATCCTTCTA-GGAT
1 TTTAAATCCTTC-AGGGAT
44786962 TTTAAATCCTTCAGGGAT
1 TTTAAATCCTTCAGGGAT
44786980 TTT
1 TTT
44786983 CATATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (18 bp):
TTTAAATCCTTCAGGGAT
Found at i:44793995 original size:71 final size:71
Alignment explanation
Indices: 44793861--44793996 Score: 182
Period size: 71 Copynumber: 1.9 Consensus size: 71
44793851 ATGCATCCTG
* * * * *
44793861 CACTGGTCGGTATAACCAACAATAAATGTGCCTTACGCTAGTCGGTAAAACGGACAAATATGTGT
1 CACTAGTCGATATAACCAACAATAAATGAGCCATACGCTAGTCGGTAAAACGGAAAAATATGTGT
44793926 GCCCAT
66 GCCCAT
* * * * *
44793932 CACTAGTCGATATAGCCGACAATAAATGAGCCATGCGCTGGTCGGTAAAACTGAAAAATATGTGT
1 CACTAGTCGATATAACCAACAATAAATGAGCCATACGCTAGTCGGTAAAACGGAAAAATATGTGT
44793997 TAAATCATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (71 bp):
CACTAGTCGATATAACCAACAATAAATGAGCCATACGCTAGTCGGTAAAACGGAAAAATATGTGT
GCCCAT
Found at i:44794643 original size:16 final size:16
Alignment explanation
Indices: 44794624--44794655 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44794614 ATAAAGTTTC
44794624 TTTTCATTTTCATTTT
1 TTTTCATTTTCATTTT
44794640 TTTTCATTTTCATTTT
1 TTTTCATTTTCATTTT
44794656 CCTTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTCATTTTCATTTT
Found at i:44794649 original size:7 final size:6
Alignment explanation
Indices: 44794620--44794661 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
44794610 TTTTATAAAG
*
44794620 TTTC-T TTTCAT TTTCAT TTT--T TTTCAT TTTCAT TTTCCT TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
44794662 TAATTTGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
4 4 0.12
5 4 0.12
6 25 0.76
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTCAT
Found at i:44794649 original size:22 final size:21
Alignment explanation
Indices: 44794620--44794662 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
44794610 TTTTATAAAG
44794620 TTTCTTTTCATTTTCATTTTT
1 TTTCTTTTCATTTTCATTTTT
*
44794641 TTTCATTTTCATTTTCCTTTTT
1 TTTC-TTTTCATTTTCATTTTT
44794663 AATTTGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCTTTTCATTTTCATTTTT
Found at i:44796333 original size:91 final size:92
Alignment explanation
Indices: 44796214--44796409 Score: 250
Period size: 91 Copynumber: 2.1 Consensus size: 92
44796204 AAATATATTG
* * *
44796214 GTGGATGAACCATCCGTCTGTGCAGATAAAAATTGCTAATACGTTGTTGATAAACCACTAGTCGA
1 GTGGATGAACCATCCATCTGTGAAGATAAAAATTGCTAATACGTTGTGGATAAACCACTAGTCGA
* *
44796279 GCAGATAATTGTAGACTAGAATAC-TA
66 GCAGATAACTGTAGACTAAAATACATA
* * * * *
44796305 GTGGATGAACCATCCATTTGTGAAGATAAAAGTTGCTAATATGTTGTGGATAAACCACTGGTTGA
1 GTGGATGAACCATCCATCTGTGAAGATAAAAATTGCTAATACGTTGTGGATAAACCACTAGTCGA
* * * *
44796370 GTAGATGACTGTTGACTAAAATACATT
66 GCAGATAACTGTAGACTAAAATACATA
*
44796397 GTGGATAAACCAT
1 GTGGATGAACCAT
44796410 TGGTCGAGCA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
91 76 0.85
92 13 0.15
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (92 bp):
GTGGATGAACCATCCATCTGTGAAGATAAAAATTGCTAATACGTTGTGGATAAACCACTAGTCGA
GCAGATAACTGTAGACTAAAATACATA
Found at i:44801956 original size:28 final size:28
Alignment explanation
Indices: 44801925--44801979 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
44801915 TAAGAAATAT
44801925 AAAAATGAATA-AACATTTTTAAAAATTC
1 AAAAATGAATAGAA-ATTTTTAAAAATTC
* * *
44801953 AAAATTTATTAGAAATTTTTAAAAATT
1 AAAAATGAATAGAAATTTTTAAAAATT
44801980 TTAAGCAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAAATGAATAGAAATTTTTAAAAATTC
Found at i:44807801 original size:20 final size:21
Alignment explanation
Indices: 44807761--44807805 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
44807751 TTTACCTTAT
44807761 TATTGTAATTTACTAAAAAAA
1 TATTGTAATTTACTAAAAAAA
*
44807782 TATTGTAATTTACCAAAAAAA
1 TATTGTAATTTACTAAAAAAA
44807803 TAT
1 TAT
44807806 CTTTTTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (21 bp):
TATTGTAATTTACTAAAAAAA
Found at i:44808696 original size:5 final size:5
Alignment explanation
Indices: 44808688--44808718 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
44808678 CTTTTTTTTC
44808688 CCCTT CCCTT CCCTT CCCTT CCCTT CCCTT C
1 CCCTT CCCTT CCCTT CCCTT CCCTT CCCTT C
44808719 TCTTTGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (5 bp):
CCCTT
Found at i:44813735 original size:26 final size:26
Alignment explanation
Indices: 44813706--44813756 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
44813696 TTTAAAGCAA
* *
44813706 TGTTCGTTGGGTTATATAA-CAGTTCC
1 TGTTCATTGGGGTAT-TAAGCAGTTCC
44813732 TGTTCATTGGGGTATTAAGCAGTTC
1 TGTTCATTGGGGTATTAAGCAGTTC
44813757 ATGGGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (26 bp):
TGTTCATTGGGGTATTAAGCAGTTCC
Found at i:44815518 original size:23 final size:23
Alignment explanation
Indices: 44815492--44815536 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
44815482 TTACTTTTGG
44815492 ATTGCAATGTCTTAATGTTTTAT
1 ATTGCAATGTCTTAATGTTTTAT
* *
44815515 ATTGGAATGTTTTAATGTTTTA
1 ATTGCAATGTCTTAATGTTTTA
44815537 CTTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (23 bp):
ATTGCAATGTCTTAATGTTTTAT
Found at i:44819635 original size:20 final size:20
Alignment explanation
Indices: 44819612--44819656 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44819602 ATTGATTTAT
*
44819612 TAAAAAAATAATTTTATAAA
1 TAAAAAAATAATCTTATAAA
** *
44819632 TAAAATTATAATCTTATCAA
1 TAAAAAAATAATCTTATAAA
44819652 TAAAA
1 TAAAA
44819657 CAATTCGTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAAAATAATCTTATAAA
Found at i:44820653 original size:10 final size:10
Alignment explanation
Indices: 44820640--44820685 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
44820630 AGCTCACTTG
44820640 AGCTCGTTTT
1 AGCTCGTTTT
*
44820650 AGCTCGTTTG
1 AGCTCGTTTT
*
44820660 AGCTTGATTTT
1 AGCTCG-TTTT
*
44820671 AGCTCGTTTC
1 AGCTCGTTTT
44820681 AGCTC
1 AGCTC
44820686 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:44820653 original size:20 final size:21
Alignment explanation
Indices: 44820630--44820675 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
44820620 AGCTCCAATC
44820630 AGCTCACTTGAGCTCG-TTTT
1 AGCTCACTTGAGCTCGATTTT
** *
44820650 AGCTCGTTTGAGCTTGATTTT
1 AGCTCACTTGAGCTCGATTTT
44820671 AGCTC
1 AGCTC
44820676 GTTTCAGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (21 bp):
AGCTCACTTGAGCTCGATTTT
Found at i:44820672 original size:21 final size:20
Alignment explanation
Indices: 44820637--44820685 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
44820627 ATCAGCTCAC
44820637 TTGAGCTCGTTTTAGCTCGT
1 TTGAGCTCGTTTTAGCTCGT
*
44820657 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTCG-TTTTAGCTCGT
*
44820678 TTCAGCTC
1 TTGAGCTC
44820686 ATTCCTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (20 bp):
TTGAGCTCGTTTTAGCTCGT
Found at i:44823705 original size:32 final size:32
Alignment explanation
Indices: 44823668--44823732 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
44823658 AATGCTTACC
44823668 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
44823700 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
44823732 A
1 A
44823733 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:44825308 original size:24 final size:24
Alignment explanation
Indices: 44825279--44825325 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
44825269 CATGCATAAC
44825279 AATTAAACCACCCATTATGTTCAT
1 AATTAAACCACCCATTATGTTCAT
44825303 AATTAAACCACCCATTATGTTCA
1 AATTAAACCACCCATTATGTTCA
44825326 CACACATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (24 bp):
AATTAAACCACCCATTATGTTCAT
Found at i:44829406 original size:41 final size:41
Alignment explanation
Indices: 44829360--44829519 Score: 189
Period size: 41 Copynumber: 3.9 Consensus size: 41
44829350 GCGAATCGGA
*
44829360 ATAGCTTCGGCTAT-ATATGGCACTTAGTGTGCTAGACTGAG
1 ATAGCTTCGGCTATGA-ATGGCACTTAGTGTGCGAGACTGAG
*
44829401 ATAGCTTCGGCTATGAATGGCACTTAGTGTGCGAGACTGTG
1 ATAGCTTCGGCTATGAATGGCACTTAGTGTGCGAGACTGAG
* * * *
44829442 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGTGAGA-TTATA
1 ATAGCTTCGGCTATGAATGGCACTTAGTGTGCGAGACTGA-G
* * **
44829483 ATAGGTTTGGCTATGCTTTGGCACTTAGTGTGCGAGA
1 ATAGCTTCGGCTATG-AATGGCACTTAGTGTGCGAGA
44829520 TATCAAGTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 84 0.82
42 18 0.17
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (41 bp):
ATAGCTTCGGCTATGAATGGCACTTAGTGTGCGAGACTGAG
Found at i:44829816 original size:21 final size:22
Alignment explanation
Indices: 44829790--44829830 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44829780 TACTAGATAC
44829790 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
44829811 AGGGGCAACACGCCTGTGTG
1 AGGGGCAACACGCCCGTGTG
44829831 ACTAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:44831003 original size:46 final size:47
Alignment explanation
Indices: 44830915--44831089 Score: 126
Period size: 46 Copynumber: 3.7 Consensus size: 47
44830905 GGGGTCAGGT
* * *
44830915 GCCGATGCCATGTCCCAGACATGTCTTACATTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCGAG
* ** *
44830962 GCCGATG-TATGTCCCAGACATGTCTTACACTAGCACT-CGTCTTAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCGAG
* * * * * * * *
44831008 GTCGATGCCATATACCAGACATAGTTTTACACTGGCTCT-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGC-CTACGT-CTCGAG
* *
44831056 GCTGATG-CATGTCCTAGACATGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGC
44831090 TCACAATAAC
Statistics
Matches: 98, Mismatches: 26, Indels: 9
0.74 0.20 0.07
Matches are distributed among these distances:
46 47 0.48
47 30 0.31
48 20 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCGAG
Found at i:44837231 original size:90 final size:89
Alignment explanation
Indices: 44837061--44837279 Score: 268
Period size: 91 Copynumber: 2.5 Consensus size: 89
44837051 CTTAAGGGTG
* * *
44837061 CAAAAAGCCCTCAAACTTTTTC--AAAAAAAGAAATTAAGCC-CTTATTTTTTTCACTCATTTGG
1 CAAAAGGCCCTCAAACTTTTTCAAAAAAAAAGCAATTAAGCCTCTTATTTTTTTCACTCAATTGG
* *
44837123 GTACTTGGATTTTCAAAATACAT-
66 GTACTTGAACTTTCAAAATACATA
* *
44837146 CAAAAGGCCCTCAAACATTTTCAAAAAAAAAGCAATTAAGCCTCTATTTTTTTTTGCACTCAATT
1 CAAAAGGCCCTCAAACTTTTTCAAAAAAAAAGCAATTAAGCCTCT-TATTTTTTT-CACTCAATT
*
44837211 GGGTACTTGAACTTTCAAAATGCATA
64 GGGTACTTGAACTTTCAAAATACATA
* * * *
44837237 AAAAAGACCCTCAAA-TTTATTTAAAAAAAAAGCAGTTAAGCCT
1 CAAAAGGCCCTCAAACTTT-TTCAAAAAAAAAGCAATTAAGCCT
44837280 TTGCTTTTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
85 20 0.18
87 17 0.15
88 2 0.02
89 8 0.07
90 32 0.28
91 35 0.31
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (89 bp):
CAAAAGGCCCTCAAACTTTTTCAAAAAAAAAGCAATTAAGCCTCTTATTTTTTTCACTCAATTGG
GTACTTGAACTTTCAAAATACATA
Found at i:44837276 original size:91 final size:86
Alignment explanation
Indices: 44837062--44837279 Score: 251
Period size: 90 Copynumber: 2.5 Consensus size: 86
44837052 TTAAGGGTGC
* * * *
44837062 AAAAAGCCCTCAAACTTTTT-CAAAAAAAGAAATTAAGCC-CTTATTTTTTTCACTCATTTGGGT
1 AAAAAGCCCTCAAAATTTTTAAAAAAAAAGCAATTAAGCCTCTTATTTTTTTCACTCAATTGGGT
* *
44837125 ACTTGGATTTTCAAAATACAT
66 ACTTGAACTTTCAAAATACAT
* * *
44837146 CAAAAGGCCCTCAAACATTTTCAAAAAAAAAGCAATTAAGCCTCTATTTTTTTTTGCACTCAATT
1 -AAAAAGCCCTCAAA-ATTTTTAAAAAAAAAGCAATTAAGCCTCT-TATTTTTTT-CACTCAATT
*
44837211 GGGTACTTGAACTTTCAAAATGCAT
62 GGGTACTTGAACTTTCAAAATACAT
* *
44837236 AAAAAAGACCCTCAAATTTATTTAAAAAAAAAGCAGTTAAGCCT
1 -AAAAAG-CCCTCAAAATT-TTTAAAAAAAAAGCAATTAAGCCT
44837280 TTGCTTTTAT
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
85 13 0.12
86 4 0.04
87 17 0.15
88 2 0.02
89 8 0.07
90 37 0.33
91 30 0.27
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (86 bp):
AAAAAGCCCTCAAAATTTTTAAAAAAAAAGCAATTAAGCCTCTTATTTTTTTCACTCAATTGGGT
ACTTGAACTTTCAAAATACAT
Found at i:44837397 original size:9 final size:9
Alignment explanation
Indices: 44837372--44837473 Score: 82
Period size: 9 Copynumber: 10.6 Consensus size: 9
44837362 AATTAAACAT
44837372 TAAAAATTTA
1 TAAAAA-TTA
44837382 TTAAAAATTA
1 -TAAAAATTA
44837392 TAAAAATATA
1 TAAAAAT-TA
44837402 TATAAAATTCA
1 TA-AAAATT-A
44837413 TAAAAA-TA
1 TAAAAATTA
*
44837421 TAAAAAATTG
1 T-AAAAATTA
*
44837431 TAAAATTTTA
1 TAAAA-ATTA
*
44837441 TAAAAATAA
1 TAAAAATTA
44837450 T-AAAATATA
1 TAAAAAT-TA
44837459 TAAAAAATTA
1 T-AAAAATTA
44837469 TAAAA
1 TAAAA
44837474 TTTTTATAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
8 7 0.09
9 26 0.34
10 24 0.32
11 19 0.25
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:44837427 original size:19 final size:19
Alignment explanation
Indices: 44837372--44837473 Score: 109
Period size: 19 Copynumber: 5.3 Consensus size: 19
44837362 AATTAAACAT
*
44837372 TAAAAATTTATTAAAAATTA
1 TAAAAATATA-TAAAAATTA
44837392 TAAAAATATATATAAAATTCA
1 TAAAAATATATA-AAAATT-A
*
44837413 TAAAAATATA-AAAAATTG
1 TAAAAATATATAAAAATTA
* * *
44837431 TAAAATTTTATAAAAATAA
1 TAAAAATATATAAAAATTA
44837450 T-AAAATATATAAAAAATTA
1 TAAAAATATAT-AAAAATTA
44837469 TAAAA
1 TAAAA
44837474 TTTTTATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
18 15 0.22
19 23 0.34
20 19 0.28
21 11 0.16
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (19 bp):
TAAAAATATATAAAAATTA
Found at i:44837436 original size:38 final size:38
Alignment explanation
Indices: 44837374--44837483 Score: 132
Period size: 38 Copynumber: 2.8 Consensus size: 38
44837364 TTAAACATTA
* * * * *
44837374 AAAATTTATTAAAAATTATAAAAATATATATAAAATTCAT
1 AAAATATATAAAAAATTAT-AAAAT-TTTATAAAAATAAT
*
44837414 AAAA-ATATAAAAAATTGTAAAATTTTATAAAAATAAT
1 AAAATATATAAAAAATTATAAAATTTTATAAAAATAAT
44837451 AAAATATATAAAAAATTATAAAATTTTTATAAA
1 AAAATATATAAAAAATTATAAAA-TTTTATAAA
44837484 GTCGTAAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
37 15 0.25
38 22 0.36
39 20 0.33
40 4 0.07
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (38 bp):
AAAATATATAAAAAATTATAAAATTTTATAAAAATAAT
Found at i:44839181 original size:16 final size:13
Alignment explanation
Indices: 44839153--44839201 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
44839143 ATTATTTTCT
*
44839153 TATTCTATGTATA
1 TATTTTATGTATA
44839166 TATTATTGATGTTATA
1 TATT-TT-ATG-TATA
44839182 TTATTTTATGTATA
1 -TATTTTATGTATA
44839196 TATTTT
1 TATTTT
44839202 CTTTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 10 0.32
14 5 0.16
15 6 0.19
16 6 0.19
17 4 0.13
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (13 bp):
TATTTTATGTATA
Found at i:44839183 original size:14 final size:15
Alignment explanation
Indices: 44839159--44839199 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
44839149 TTCTTATTCT
44839159 ATGTATATATTATTG
1 ATGTATATATTATTG
*
44839174 ATGT-TATATTATTTT
1 ATGTATATATTA-TTG
44839189 ATGTATATATT
1 ATGTATATATT
44839200 TTCTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (15 bp):
ATGTATATATTATTG
Found at i:44839953 original size:26 final size:24
Alignment explanation
Indices: 44839909--44839957 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
44839899 ATTTGTTTTA
*
44839909 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
44839933 ATATTTGATTTTTTATATTTTTAAA
1 ATATTTG--TTTTTATATTTTTAAA
44839958 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
26 15 0.68
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:44844619 original size:14 final size:15
Alignment explanation
Indices: 44844584--44844616 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
44844574 AATTAAAAGT
44844584 AAAAGTAAAATAAAA
1 AAAAGTAAAATAAAA
44844599 AAAAGTAAAATAAAA
1 AAAAGTAAAATAAAA
44844614 AAA
1 AAA
44844617 GTATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAGTAAAATAAAA
Found at i:44849065 original size:13 final size:14
Alignment explanation
Indices: 44849049--44849107 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
44849039 AAAAAATATT
44849049 AATTTAAAA-AATA
1 AATTTAAAATAATA
44849062 AA-TTAAAATAA-A
1 AATTTAAAATAATA
44849074 AATTTGAAAATAATA
1 AATTT-AAAATAATA
* *
44849089 TTAATTAAAAATATTA
1 --AATTTAAAATAATA
44849105 AAT
1 AAT
44849108 AAAAAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
12 9 0.24
13 6 0.16
14 10 0.26
15 1 0.03
16 8 0.21
17 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
AATTTAAAATAATA
Found at i:44849110 original size:13 final size:13
Alignment explanation
Indices: 44849067--44849112 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
44849057 AAATAAATTA
44849067 AAATAAAAAT-TT
1 AAATAAAAATATT
* *
44849079 GAA-AATAATATT
1 AAATAAAAATATT
*
44849091 AATTAAAAATATT
1 AAATAAAAATATT
44849104 AAATAAAAA
1 AAATAAAAA
44849113 ATTTAAAACG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 16 0.62
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (13 bp):
AAATAAAAATATT
Found at i:44858873 original size:28 final size:28
Alignment explanation
Indices: 44858841--44858924 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
44858831 AACTGTGATC
44858841 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
44858869 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
44858891 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
44858919 ACGTGT
1 ACGTGT
44858925 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:44858914 original size:50 final size:49
Alignment explanation
Indices: 44858793--44858982 Score: 227
Period size: 50 Copynumber: 3.8 Consensus size: 49
44858783 TGAGGTCGCA
* * * * *
44858793 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
44858844 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
44858894 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
44858943 TGTGTAGTACCATGTGCAGGCTACTATGTGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
44858983 CTTTGACTAC
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
49 42 0.35
50 45 0.38
51 33 0.28
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:44860373 original size:24 final size:24
Alignment explanation
Indices: 44860343--44860444 Score: 82
Period size: 24 Copynumber: 4.2 Consensus size: 24
44860333 CTGTATAACG
44860343 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
**
44860367 GGAAGCTCATGCGAGCCAATAA-CA
1 GGAAGCTCATAAGAGCC-ATAATCA
* * *
44860391 GGTAGCTC-TAAAGATCCATTAATCG
1 GGAAGCTCAT-AAGAGCCA-TAATCA
** *
44860416 GGAAGCTCCGAATAGCCATATATCA
1 GGAAGCTCATAAGAGCCATA-ATCA
44860441 GGAA
1 GGAA
44860445 TTTCAGGCGA
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
23 2 0.03
24 33 0.55
25 25 0.42
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:44860597 original size:64 final size:64
Alignment explanation
Indices: 44860482--44860603 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 64
44860472 ACAAGGAGCC
* * ** * * *
44860482 TATATCAAGACGCTCATAAAGAACTGTGGTATATCCGCAATACATGCAGGATCAATACCAATCA
1 TATAACAAGACGCTCACAAAGAACTACGATATATCCGCAACACATACAGGATCAATACCAATCA
* * *
44860546 TATAACAAGACGCTCACAAAGAGCTACGATATGTCCGCAACACATATAGGATCAATAC
1 TATAACAAGACGCTCACAAAGAACTACGATATATCCGCAACACATACAGGATCAATAC
44860604 AGATTGGGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (64 bp):
TATAACAAGACGCTCACAAAGAACTACGATATATCCGCAACACATACAGGATCAATACCAATCA
Found at i:44861187 original size:21 final size:21
Alignment explanation
Indices: 44861161--44861204 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
44861151 TTTATAGCCC
44861161 ATGTAATTCATAAAATTCAGA
1 ATGTAATTCATAAAATTCAGA
*
44861182 ATGTAATTCATAAAATTTAGA
1 ATGTAATTCATAAAATTCAGA
44861203 AT
1 AT
44861205 TTCTCCATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (21 bp):
ATGTAATTCATAAAATTCAGA
Found at i:44877270 original size:21 final size:21
Alignment explanation
Indices: 44877246--44877285 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44877236 AGACGAGCAA
* *
44877246 TACTCCACAGCAGGTGGAGCG
1 TACTCCAAAACAGGTGGAGCG
44877267 TACTCCAAAACAGGTGGAG
1 TACTCCAAAACAGGTGGAG
44877286 TTTGAGCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.30, T:0.15
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGCG
Found at i:44879225 original size:16 final size:16
Alignment explanation
Indices: 44879192--44879225 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44879182 GGAGATTGTT
* *
44879192 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
44879208 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
44879224 AA
1 AA
44879226 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:44884558 original size:22 final size:22
Alignment explanation
Indices: 44884518--44884559 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
44884508 TCTCCCTATT
*
44884518 TTACTACAATTTCACTATTATG
1 TTACTACAATTTAACTATTATG
* *
44884540 TTACTACTATTTAAGTATTA
1 TTACTACAATTTAACTATTA
44884560 GTATTTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (22 bp):
TTACTACAATTTAACTATTATG
Found at i:44889458 original size:51 final size:51
Alignment explanation
Indices: 44889352--44889536 Score: 149
Period size: 51 Copynumber: 3.6 Consensus size: 51
44889342 ACGGATGCCC
* * * * *
44889352 AGTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAACTACCTTCTT-CACAA
1 AGTGGCCTGCACATAGTACCACACATGTGA-CCAAAGCTATCTT-TTACACAA
** * *
44889403 AGTGGCCTTTACATAGTACCACACCTGTGACCAAAGCTATCTTTTACACAT
1 AGTGGCCTGCACATAGTACCACACATGTGACCAAAGCTATCTTTTACACAA
* * * *** * *
44889454 AGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCAT
1 AGTGGCCTGCACATAGTACCACACATGTGACCAAAGCTATCTTTTACACAA
* * * *
44889505 AGTAGCCTGCACTTAGTACTACACATGCGACC
1 AGTGGCCTGCACATAGTACCACACATGTGACC
44889537 TAACCATCTG
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
50 2 0.02
51 107 0.97
52 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (51 bp):
AGTGGCCTGCACATAGTACCACACATGTGACCAAAGCTATCTTTTACACAA
Found at i:44889571 original size:50 final size:51
Alignment explanation
Indices: 44889447--44889579 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 51
44889437 AGCTATCTTT
* * * *
44889447 TACACATAGTG-GCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAG-GAGCCTGCACTTAGTACTACACATGCGACCGAAGCCATCGGG
* * * *
44889498 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CCATCTGG
1 TACACATAGGAGCCTGCACTTAGTACTACACATGCGACCGAAGCCATCGGG
**
44889548 TACATGTAGGAGCCTGCACTTAGTACTACACA
1 TACACATAGGAGCCTGCACTTAGTACTACACA
44889580 CGTTACCTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 34 0.49
51 35 0.51
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (51 bp):
TACACATAGGAGCCTGCACTTAGTACTACACATGCGACCGAAGCCATCGGG
Found at i:44892763 original size:28 final size:30
Alignment explanation
Indices: 44892725--44892784 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
44892715 TAAAGTGATT
*
44892725 TTTAGTAAAAATGCATATT-AGGGATTAAA
1 TTTAGTAAAAATGCAAATTGAGGGATTAAA
* *
44892754 TTTAG-AAAAATGTAAATTGAGGGGTTAAA
1 TTTAGTAAAAATGCAAATTGAGGGATTAAA
44892783 TT
1 TT
44892785 GTGAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (30 bp):
TTTAGTAAAAATGCAAATTGAGGGATTAAA
Found at i:44896827 original size:23 final size:23
Alignment explanation
Indices: 44896801--44896845 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
44896791 ATAACTTTTA
*
44896801 ATCAGAAAACTCACGAAGAGCCT
1 ATCAGAAAACTCACAAAGAGCCT
*
44896824 ATCAGAAAGCTCACAAAGAGCC
1 ATCAGAAAACTCACAAAGAGCC
44896846 ATGTATCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.27, G:0.18, T:0.11
Consensus pattern (23 bp):
ATCAGAAAACTCACAAAGAGCCT
Found at i:44899655 original size:21 final size:21
Alignment explanation
Indices: 44899615--44899655 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
44899605 ATTTTAATAA
*
44899615 AATGTTTTGATTTACTAAAAC
1 AATGTTTTGATCTACTAAAAC
44899636 AATGATTTTGATCTAC-AAAA
1 AATG-TTTTGATCTACTAAAA
44899656 TTCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (21 bp):
AATGTTTTGATCTACTAAAAC
Found at i:44900351 original size:3 final size:3
Alignment explanation
Indices: 44900345--44900405 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
44900335 AATGATGATG
44900345 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44900393 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
44900406 CGATTTAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44912178 original size:46 final size:46
Alignment explanation
Indices: 44912125--44912390 Score: 238
Period size: 47 Copynumber: 5.7 Consensus size: 46
44912115 ATTGTGGGCT
* *
44912125 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGCC
* * * * *
44912171 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CATCAAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGCC
* *
44912219 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGAGCC
* * * *
44912265 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
* * *
44912311 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AATTGAGAT-ATGGGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGA-GAGCC
*
44912358 AGTGTAAGACCATGTCTAGGACATGTCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC
44912391 ACCTTACCCC
Statistics
Matches: 183, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 76 0.42
47 77 0.42
48 28 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
Found at i:44912377 original size:140 final size:141
Alignment explanation
Indices: 44912125--44912390 Score: 360
Period size: 140 Copynumber: 1.9 Consensus size: 141
44912115 ATTGTGGGCT
* * *
44912125 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
44912190 GACATGGCATCGGCATCAAGACGAGTGCTAGTGTAAGACATGTCTAGGACATG-CATCGGCCTCG
66 GACATGGCATCGGAATCAAGACGAGGGCCAGTGTAAGACATGTCTAGGACATGTCATCGGCCTCG
44912254 AGATGTAAGCC
131 AGATGTAAGCC
* * * *
44912265 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTG
** *
44912329 GGACATGGCATC-GAATTGAGA-TATGGGCCAGTGTAAGACCATGTCTAGGACATGTCATCGGC
65 GGACATGGCATCGGAATCAAGACGA-GGGCCAGTGTAAGA-CATGTCTAGGACATGTCATCGGC
44912391 ACCTTACCCC
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 82 0.75
141 8 0.07
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGAATCAAGACGAGGGCCAGTGTAAGACATGTCTAGGACATGTCATCGGCCTCG
AGATGTAAGCC
Found at i:44917303 original size:6 final size:6
Alignment explanation
Indices: 44917294--44917325 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
44917284 CACCGTAAGG
*
44917294 GTAACA GTAACA GTAATA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
44917326 CAGGTACAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (6 bp):
GTAACA
Found at i:44918199 original size:20 final size:18
Alignment explanation
Indices: 44918161--44918204 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
44918151 AAACCCTAAT
44918161 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
44918178 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
44918198 TTTCCCT
1 TTTCCCT
44918205 GCTCATTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Done.