Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold279
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: 1516008
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 1 of 10
Found at i:9023 original size:11 final size:11
Alignment explanation
Indices: 9007--9093 Score: 95
Period size: 11 Copynumber: 7.7 Consensus size: 11
8997 AGGCTCAAAT
9007 AAAAAAAAGAG
1 AAAAAAAAGAG
9018 AAAAAAAAGAG
1 AAAAAAAAGAG
*
9029 AATAAAAAGAG
1 AAAAAAAAGAG
9040 AAAAAAAA-AG
1 AAAAAAAAGAG
*
9050 AAAGAAAAGAG
1 AAAAAAAAGAG
* *
9061 AAAAGAAATAG
1 AAAAAAAAGAG
*
9072 AAACAAAGAGGTAG
1 AAA-AAA-AAG-AG
9086 AAAAAAAA
1 AAAAAAAA
9094 TAAGGCTAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
10 9 0.15
11 41 0.66
12 3 0.05
13 4 0.06
14 5 0.08
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:9074 original size:32 final size:32
Alignment explanation
Indices: 9003--9074 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
8993 AGGAAGGCTC
*
9003 AAATA-AAAAAAAGAGAAAAAAAAGAGAATAA
1 AAATAGAAAAAAAAAGAAAAAAAAGAGAATAA
* *
9034 AAAGAGAAAAAAAAAGAAAGAAAAGAGAA-AA
1 AAATAGAAAAAAAAAGAAAAAAAAGAGAATAA
9065 GAAATAGAAA
1 -AAATAGAAA
9075 CAAAGAGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 6 0.17
32 29 0.83
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (32 bp):
AAATAGAAAAAAAAAGAAAAAAAAGAGAATAA
Found at i:10940 original size:70 final size:70
Alignment explanation
Indices: 10864--11016 Score: 243
Period size: 70 Copynumber: 2.2 Consensus size: 70
10854 TCCTCCGAGG
10864 GGATACTCCAACCCCGCTTTTAAATGCATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACC
1 GGATACTCCAACCCCGCTTTTAAATGCATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACC
10929 ATCGA
66 ATCGA
* * * *
10934 GGATACTCCAACCCTGCTTTTAAATGCATCAAAGTTTAAATCTTATTTTCATTTAAATTGTCATC
1 GGATACTCCAACCCCGCTTTTAAATGCATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACC
*
10999 ATCGG
66 ATCGA
* *
11004 GGACACTTCAACC
1 GGATACTCCAACC
11017 TCATTCCTCC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (70 bp):
GGATACTCCAACCCCGCTTTTAAATGCATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACC
ATCGA
Found at i:11233 original size:97 final size:97
Alignment explanation
Indices: 11067--11253 Score: 320
Period size: 97 Copynumber: 1.9 Consensus size: 97
11057 TCACTCAAAG
* * *
11067 TTTAAACGCATTAAAGTTTAAATCTTATTCTCACTTAAATTGTCACCATCGGGGACATTTCAACC
1 TTTAAACGCATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACCATCGGGGACACTCCAACC
11132 CCATTCCTCCGAAGGGATACTCCAACCCTGCT
66 CCATTCCTCCGAAGGGATACTCCAACCCTGCT
*
11164 TTTAAACGCATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCATCATCGGGGACACTCCAACC
1 TTTAAACGCATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACCATCGGGGACACTCCAACC
* *
11229 CCATTCCTCTGAGGGGATACTCCAA
66 CCATTCCTCCGAAGGGATACTCCAA
11254 TCCAGTTTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (97 bp):
TTTAAACGCATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACCATCGGGGACACTCCAACC
CCATTCCTCCGAAGGGATACTCCAACCCTGCT
Found at i:22895 original size:17 final size:16
Alignment explanation
Indices: 22875--22958 Score: 96
Period size: 17 Copynumber: 4.9 Consensus size: 16
22865 CATCCTTCTT
22875 AAAAAAACAAAAAAACA
1 AAAAAAACAAAAAAA-A
* *
22892 AAAAAAATAAAAAACA
1 AAAAAAACAAAAAAAA
22908 AAAAAAACAAAAGAAAA
1 AAAAAAACAAAA-AAAA
*
22925 TAAAAAACAAAAAAAA
1 AAAAAAACAAAAAAAA
22941 ATAGAAAAACACAAAAAA
1 A-A-AAAAACA-AAAAAA
22959 TAGGGGTCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
16 16 0.28
17 28 0.49
18 7 0.12
19 6 0.11
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.04
Consensus pattern (16 bp):
AAAAAAACAAAAAAAA
Found at i:22902 original size:25 final size:25
Alignment explanation
Indices: 22876--22948 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
22866 ATCCTTCTTA
22876 AAAAAACAAAAAAACAAAA-AAAAT
1 AAAAAACAAAAAAACAAAAGAAAAT
22900 AAAAAACAAAAAAAACAAAAGAAAAT
1 AAAAAAC-AAAAAAACAAAAGAAAAT
*
22926 AAAAAACAAAAAAA-AATAGAAAA
1 AAAAAACAAAAAAACAAAAGAAAA
22949 ACACAAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
24 15 0.33
25 19 0.41
26 12 0.26
ACGTcount: A:0.86, C:0.07, G:0.03, T:0.04
Consensus pattern (25 bp):
AAAAAACAAAAAAACAAAAGAAAAT
Found at i:22949 original size:25 final size:24
Alignment explanation
Indices: 22883--22940 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 24
22873 TTAAAAAAAC
22883 AAAAAAACAAAAAAAATAAAAAACA
1 AAAAAAACAAAAAAAAT-AAAAACA
22908 AAAAAAACAAAAGAAAATAAAAAACA
1 AAAAAAACAAAA-AAAAT-AAAAACA
22934 AAAAAAA
1 AAAAAAA
22941 ATAGAAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 12 0.38
26 20 0.62
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.03
Consensus pattern (24 bp):
AAAAAAACAAAAAAAATAAAAACA
Found at i:22958 original size:1 final size:1
Alignment explanation
Indices: 22875--22941 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
22865 CATCCTTCTT
* * * * * * * *
22875 AAAAAAACAAAAAAACAAAAAAAATAAAAAACAAAAAAAACAAAAGAAAATAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22940 AA
1 AA
22942 TAGAAAAACA
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.88, C:0.07, G:0.01, T:0.03
Consensus pattern (1 bp):
A
Found at i:24195 original size:28 final size:28
Alignment explanation
Indices: 24146--24553 Score: 425
Period size: 28 Copynumber: 14.5 Consensus size: 28
24136 TACAACCCTT
*
24146 TTTC-AAGCCCACAAGTCAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
* * *
24174 TTTTAAAGCCCAC-AGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
24201 TTTCAAAAGCCCACAAGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCC
* *
24230 TTTCAAAGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
24258 TTTCAAAGCCCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
24286 TTTCAAAGCCCACAAGTCAATGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
24314 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
24342 TTTCAAAAGCCCACAAGTCAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCC
* * *
24371 TTTCAAAGCACACAATTTAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
24398 TTTCAAAGCCCACAAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
24425 TTTCAAAAGCCAATAAGTCAATGGCA-CC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCC
** * *
24453 TTTCAAAAGCTAACAAGTCAATGGCA-CATA
1 TTTC-AAAGCCCACAAGTCAGTGGCATC--C
* * * * * *
24483 TTTAAAAG-CCAAAAGTCAATGGAAACT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
24510 TTTCAAAGCCCATAAGTCAGTGGCAACCC
1 TTTCAAAGCCCACAAGTCAGTGGC-ATCC
24539 TTTTCAAAGCCCACA
1 -TTTCAAAGCCCACA
24554 CAAGTTGGTG
Statistics
Matches: 332, Mismatches: 37, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
27 43 0.13
28 214 0.64
29 59 0.18
30 16 0.05
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:26092 original size:13 final size:14
Alignment explanation
Indices: 26074--26110 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
26064 AGGTTCAACT
26074 AAAAAAAAGACA-A
1 AAAAAAAAGACAGA
*
26087 AAAAAAAAGAGAGA
1 AAAAAAAAGACAGA
26101 AAAAAAAAGA
1 AAAAAAAAGA
26111 GAAAGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGACAGA
Found at i:26104 original size:16 final size:16
Alignment explanation
Indices: 26074--26130 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
26064 AGGTTCAACT
26074 AAAAA-AAAGACAAAAA
1 AAAAAGAAAGA-AAAAA
*
26090 AAAAAGAGAGAAAAAA
1 AAAAAGAAAGAAAAAA
* *
26106 AAAGAGAAAGAAAAGA
1 AAAAAGAAAGAAAAAA
*
26122 GAAAAGAAA
1 AAAAAGAAA
26131 TAGAAACAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 30 0.88
17 4 0.12
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAA
Found at i:26109 original size:14 final size:13
Alignment explanation
Indices: 26074--26119 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
26064 AGGTTCAACT
*
26074 AAAAAAAAGACAA
1 AAAAAAAAGAGAA
26087 AAAAAAAAGAGAGA
1 AAAAAAAAGAGA-A
26101 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
26114 AGAAAA
1 A-AAAA
26120 GAGAAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 13 0.43
14 17 0.57
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:26111 original size:12 final size:12
Alignment explanation
Indices: 26087--26126 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
26077 AAAAAGACAA
26087 AAAAAAAAGAGAG
1 AAAAAAAA-AGAG
26100 AAAAAAAAAGAG
1 AAAAAAAAAGAG
*
26112 -AAAGAAAAGAG
1 AAAAAAAAAGAG
26123 AAAA
1 AAAA
26127 GAAATAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 7 0.28
13 8 0.32
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:26127 original size:12 final size:12
Alignment explanation
Indices: 26096--26130 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
26086 AAAAAAAAAG
*
26096 AGAGAAAAAAAA
1 AGAGAAAAGAAA
26108 AGAG-AAAGAAA
1 AGAGAAAAGAAA
26119 AGAGAAAAGAAA
1 AGAGAAAAGAAA
26131 TAGAAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAGAAAAGAAA
Found at i:27942 original size:96 final size:97
Alignment explanation
Indices: 27833--28017 Score: 257
Period size: 97 Copynumber: 1.9 Consensus size: 97
27823 ATTCCTTTGA
* *
27833 GGGATACTTCAA-CCC-TGCTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCA
1 GGGATACTCCAACCCCAT-CTTTAAACACATCAAAGCTTAAATCTTATTCTCACTTAAATTGTCA
* *
27896 CCATCGGGGACACTTCAACTCCATTCCTCCGAG
65 CCATCGGGGACACTCCAACCCCATTCCTCCGAG
* *** * *
27929 GGGATACTCCAACCCCATTTTTAAATGTATCAAAGCTTAAATCTTATTTTCACTTAAATTGTCAT
1 GGGATACTCCAACCCCATCTTTAAACACATCAAAGCTTAAATCTTATTCTCACTTAAATTGTCAC
27994 CATCGGGGACACTCCAACCCCATT
66 CATCGGGGACACTCCAACCCCATT
28018 TTTCAATCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
96 11 0.14
97 65 0.84
98 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (97 bp):
GGGATACTCCAACCCCATCTTTAAACACATCAAAGCTTAAATCTTATTCTCACTTAAATTGTCAC
CATCGGGGACACTCCAACCCCATTCCTCCGAG
Found at i:31277 original size:81 final size:80
Alignment explanation
Indices: 31165--31752 Score: 551
Period size: 81 Copynumber: 7.3 Consensus size: 80
31155 GTGGGATTAA
* * *
31165 AGTATCCCT-AAGATAGAAAATTTGATATTTTTAGAAGTAAAAATGGGGTTGGACTATCCCCTCG
1 AGTATCCCTGAAGATGGAAAATTTGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTCG
*
31229 GAAATACTGGGGTTGG
66 AAAATA-TGGGGTTGG
* * * * *
31245 AGTATCCTTGAAGATGGAAAATTTGATATTTTT-GTTAAAGTAAAAACAGGATTAGAGTATCCTC
1 AGTATCCCTGAAGATGGAAAATTTGATATTTTTAG---AAGTAAAAACGGGGTTGGAGTATCCCC
*
31309 TCAAAAATGATGGGGTTGG
63 TCGAAAAT-ATGGGGTTGG
* ** * *
31328 AGTATCCCCGAAGAT-GAAAAGTTTGATACGTTTAGAAGTAAAAATGGGGTTGGAGTATCCTCTC
1 AGTATCCCTGAAGATGGAAAA-TTTGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTC
* *
31392 GAAAATGGTGCGGTTGG
65 GAAAAT-ATGGGGTTGG
* * * * * *
31409 AGTATCCCTCAAGATGAAAAATTTGATATTTTTA-AGAGAAAAAATGGGCTTCGAGTATCCCCTC
1 AGTATCCCTGAAGATGGAAAATTTGATATTTTTAGA-AGTAAAAACGGGGTTGGAGTATCCCCTC
31473 G-AAA-ATGGTAGGTTGG
65 GAAAATATGG--GGTTGG
* * * * *
31489 AGTATCCCCGAAGAT-GAAAATTTTGGTATTTTTAGGAGTAAAAA------TGAAGTATCCCCTT
1 AGTATCCCTGAAGATGGAAAA-TTTGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTC
* *
31547 GAAAATGGTAGGGTTGG
65 GAAAAT-ATGGGGTTGG
* * * *
31564 AGTATCCCCGAAGATGAAAAATTTGATATTTTTAGGAGTAAAAACGGGGTTGGATTATCCCCTCG
1 AGTATCCCTGAAGATGGAAAATTTGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTCG
*
31629 AAAATGGTGGGGTTGG
66 AAAAT-ATGGGGTTGG
* ** *
31645 AGTATCCCCT-AAGATGAAAAATTTGATATTTTTAGAAGTAAAAACAAGGTTGAAGTATCCCCTC
1 AGTAT-CCCTGAAGATGGAAAATTTGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTC
31709 GAAAATGATGGGGTTGG
65 GAAAAT-ATGGGGTTGG
*
31726 AGTATCTCC-GATAG-TGAAAAATTTGAT
1 AGTATC-CCTGA-AGATGGAAAATTTGAT
31753 GCTTTTGGAA
Statistics
Matches: 425, Mismatches: 56, Indels: 53
0.80 0.10 0.10
Matches are distributed among these distances:
74 12 0.03
75 46 0.11
76 4 0.01
77 2 0.00
78 2 0.00
79 4 0.01
80 52 0.12
81 228 0.54
82 14 0.03
83 59 0.14
84 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (80 bp):
AGTATCCCTGAAGATGGAAAATTTGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTCG
AAAATATGGGGTTGG
Found at i:31615 original size:236 final size:236
Alignment explanation
Indices: 31165--31752 Score: 660
Period size: 236 Copynumber: 2.4 Consensus size: 236
31155 GTGGGATTAA
* *
31165 AGTATCCCT-AAGAT-AGAAAATTTGATATTTTTAGAAGTAAAAATGGGGTTGGACTATCCCCTC
1 AGTATCCCTCAAGATGA-AAAATTTGATATTTTTAGAAGAAAAAAT-GGGTT-GAGTATCCCCTC
**
31228 GGAAATACTGG-GGTTGGAGTATCCTTGAAGATGGAAAATTTGATATTTTTGTTAAAGTAAAAAC
63 -GAAA-A-TGGTGGTTGGAGTATCCCCGAAGAT-GAAAATTTGATATTTTTG-T-AAGT-AAAAC
* * * *
31292 AGGATTAGAGTATCCTCTCAAAAATGATGGGGTTGGAGTATCCCCGAAGATGAAAAGTTTGATAC
121 A-GATGAGAGTATCCCCTCAAAAATGATAGGGTTGGAGTATCCCCGAAGATGAAAAATTTGATAC
* *
31357 GTTTAGAAGTAAAAATGGGGTTGGAGTATCCTCTCGAAAATGGTGCGGTTGG
185 GTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCTCGAAAATGGTGCGGTTGG
31409 AGTATCCCTCAAGATGAAAAATTTGATATTTTTA-AGAGAAAAAATGGGCTTCGAGTATCCCCTC
1 AGTATCCCTCAAGATGAAAAATTTGATATTTTTAGA-AGAAAAAATGGG-TT-GAGTATCCCCTC
* *
31473 GAAAATGGTAGGTTGGAGTATCCCCGAAGATGAAAATTTTGGTATTTTTAG-GAGT-AAA-A-AT
63 GAAAATGGT-GGTTGGAGTATCCCCGAAGATGAAAA-TTTGATATTTTT-GTAAGTAAAACAGAT
** * **
31534 GA-AGTATCCCCTTGAAAATGGTAGGGTTGGAGTATCCCCGAAGATGAAAAATTTGATATTTTTA
125 GAGAGTATCCCCTCAAAAATGATAGGGTTGGAGTATCCCCGAAGATGAAAAATTTGATACGTTTA
* * *
31598 GGAGTAAAAACGGGGTTGGATTATCCCCTCGAAAATGGTGGGGTTGG
190 GAAGTAAAAACGGGGTTGGAGTATCCCCTCGAAAATGGTGCGGTTGG
*
31645 AGTATCCC-CTAAGATGAAAAATTTGATATTTTTAGAAGTAAAAACA-AGGTTGAAGTATCCCCT
1 AGTATCCCTC-AAGATGAAAAATTTGATATTTTTAGAAG-AAAAA-ATGGGTTG-AGTATCCCCT
* *
31708 CGAAAATGATGGGGTTGGAGTATCTCCGATAG-TGAAAAATTTGAT
62 CGAAAATG--GTGGTTGGAGTATCCCCGA-AGATG-AAAATTTGAT
31753 GCTTTTGGAA
Statistics
Matches: 302, Mismatches: 25, Indels: 41
0.82 0.07 0.11
Matches are distributed among these distances:
235 2 0.01
236 150 0.50
237 34 0.11
238 8 0.03
239 1 0.00
240 3 0.01
242 6 0.02
243 6 0.02
244 47 0.16
245 44 0.15
246 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (236 bp):
AGTATCCCTCAAGATGAAAAATTTGATATTTTTAGAAGAAAAAATGGGTTGAGTATCCCCTCGAA
AATGGTGGTTGGAGTATCCCCGAAGATGAAAATTTGATATTTTTGTAAGTAAAACAGATGAGAGT
ATCCCCTCAAAAATGATAGGGTTGGAGTATCCCCGAAGATGAAAAATTTGATACGTTTAGAAGTA
AAAACGGGGTTGGAGTATCCCCTCGAAAATGGTGCGGTTGG
Found at i:33399 original size:19 final size:19
Alignment explanation
Indices: 33375--33470 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
33365 TTTCAACGAT
33375 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
33394 TTGTATCGATAC------G
1 TTGTATCGATACATAAGTG
*
33407 ATGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
33426 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
33440 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
33458 TTGTATCGATACA
1 TTGTATCGATACA
33471 ATGTACAGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 24
0.71 0.02 0.27
Matches are distributed among these distances:
13 23 0.37
15 2 0.03
17 2 0.03
19 36 0.57
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:33412 original size:32 final size:32
Alignment explanation
Indices: 33376--33475 Score: 182
Period size: 32 Copynumber: 3.1 Consensus size: 32
33366 TTCAACGATT
*
33376 TGTATCGATACATAAGTGTTGTATCGATACGA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
33408 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
33440 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
33472 TGTA
1 TGTA
33476 CAGTTACGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:33445 original size:13 final size:13
Alignment explanation
Indices: 33427--33451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33417 ACATAAGTGT
33427 TGTATCGATACAA
1 TGTATCGATACAA
33440 TGTATCGATACA
1 TGTATCGATACA
33452 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:33600 original size:52 final size:52
Alignment explanation
Indices: 33543--33671 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
33533 CACTGATCTT
*
33543 TGTATCGATTCATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
33595 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
33647 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
33672 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:43121 original size:52 final size:52
Alignment explanation
Indices: 42974--43103 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
42964 CCGAAATATG
42974 AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGA
1 AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGA
* * *
43026 AAAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGG
1 AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGA
* *
43078 CAAATTTGCCTGCATATATCGATACA
1 AAAATTTGCCTGCATGTATCGATACA
43104 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
AAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGA
Found at i:43236 original size:31 final size:32
Alignment explanation
Indices: 43174--43266 Score: 143
Period size: 32 Copynumber: 2.9 Consensus size: 32
43164 GGCAGTAGCT
* * *
43174 TATCAATACAAAACTTATGTATCAATACATTG
1 TATCGATACAACACTTATGTATCGATACATTG
43206 TATCGATACAACACTTATGTAT-GATACATTG
1 TATCGATACAACACTTATGTATCGATACATTG
43237 TATCGATACAACACTTTATGTATCGATACA
1 TATCGATACAACAC-TTATGTATCGATACA
43267 AATCGTTGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
31 22 0.39
32 28 0.50
33 6 0.11
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (32 bp):
TATCGATACAACACTTATGTATCGATACATTG
Found at i:51172 original size:21 final size:20
Alignment explanation
Indices: 51148--51198 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
51138 CGTCCTCCAC
51148 AAAAAAAAAAGAAGAAAGAAG
1 AAAAAAAAAAGAAGAAA-AAG
*
51169 AAAAAAAAGAGAAGAAAAA-
1 AAAAAAAAAAGAAGAAAAAG
51188 AAAAGAAAAAA
1 AAAA-AAAAAA
51199 ACAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 7 0.26
21 16 0.59
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAGAAGAAAAAG
Found at i:51183 original size:14 final size:13
Alignment explanation
Indices: 51162--51204 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
51152 AAAAAAGAAG
51162 AAAGAAGAAAAAA
1 AAAGAAGAAAAAA
51175 AAGAGAAGAAAAAA
1 AA-AGAAGAAAAAA
51189 AAAGAA-AAAAACA
1 AAAGAAGAAAAA-A
51202 AAA
1 AAA
51205 AAAAAGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 13 0.46
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAA
Found at i:51183 original size:24 final size:22
Alignment explanation
Indices: 51148--51250 Score: 75
Period size: 24 Copynumber: 4.4 Consensus size: 22
51138 CGTCCTCCAC
* *
51148 AAAAAAAAAAGAAGAAAGAAGA
1 AAAAAAAAAAGAAAAAAAAAGA
51170 AAAAAAAGAGAAGAAAAAAAAAGA
1 AAAAAAA-A-AAGAAAAAAAAAGA
51194 AAAAAACAAAA-AAAAAGGAAAA-A
1 AAAAAA-AAAAGAAAAA--AAAAGA
* * *
51217 ACACAACAAACAAGAGAAAAAAACA
1 A-A-AA-AAAAAAGAAAAAAAAAGA
51242 AAAAAAAAA
1 AAAAAAAAA
51251 CAAAAACAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
22 16 0.24
23 7 0.11
24 29 0.44
25 8 0.12
26 6 0.09
ACGTcount: A:0.83, C:0.06, G:0.12, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAGAAAAAAAAAGA
Found at i:51186 original size:10 final size:10
Alignment explanation
Indices: 51149--51249 Score: 78
Period size: 10 Copynumber: 9.9 Consensus size: 10
51139 GTCCTCCACA
51149 AAAAAAAAAG
1 AAAAAAAAAG
* *
51159 AAGAAAGAAG
1 AAAAAAAAAG
51169 AAAAAAAAGAG
1 AAAAAAAA-AG
51180 AAGAAAAAAA-
1 AA-AAAAAAAG
*
51190 AAGAAAAAAAC
1 AA-AAAAAAAG
51201 AAAAAAAAAG
1 AAAAAAAAAG
* * *
51211 GAAAAAACAC
1 AAAAAAAAAG
* *
51221 AACAAACAAG
1 AAAAAAAAAG
* *
51231 AGAAAAAAAC
1 AAAAAAAAAG
51241 AAAAAAAAA
1 AAAAAAAAA
51250 ACAAAAACAA
Statistics
Matches: 70, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
10 57 0.81
11 7 0.10
12 6 0.09
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:51206 original size:20 final size:20
Alignment explanation
Indices: 51183--51250 Score: 84
Period size: 19 Copynumber: 3.4 Consensus size: 20
51173 AAAAGAGAAG
51183 AAAAAAAAAGAAAAAAAC-A
1 AAAAAAAAAGAAAAAAACAA
*
51202 AAAAAAAAGGAAAAAACACAA
1 AAAAAAAAAGAAAAAA-ACAA
* * *
51223 CAAACAAGAGAAAAAAACAA
1 AAAAAAAAAGAAAAAAACAA
51243 AAAAAAAA
1 AAAAAAAA
51251 CAAAAACAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 15 0.38
20 11 0.28
21 13 0.33
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAACAA
Found at i:51206 original size:51 final size:51
Alignment explanation
Indices: 51146--51256 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 51
51136 GGCGTCCTCC
* *
51146 ACAAAAAAAAAAGAAGAAAGA-AGAA-AAAAAAGAGAAGAAAAAAAAAGAAAAAA
1 ACAAAAAAAAAAGAA-AAA-ACACAACAAACAAGAGAA-AAAAAAAAA-AAAAAA
* *
51199 ACAAAAAAAAAGGAAAAAACACAACAAACAAGAGAAAAAAACAAAAAAAAA
1 ACAAAAAAAAAAGAAAAAACACAACAAACAAGAGAAAAAAAAAAAAAAAAA
51250 ACAAAAA
1 ACAAAAA
51257 CAACAGCAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
51 14 0.27
52 14 0.27
53 24 0.46
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (51 bp):
ACAAAAAAAAAAGAAAAAACACAACAAACAAGAGAAAAAAAAAAAAAAAAA
Found at i:52755 original size:28 final size:29
Alignment explanation
Indices: 52708--52957 Score: 276
Period size: 30 Copynumber: 8.6 Consensus size: 29
52698 GGCATTCCTC
* * * *
52708 ACCTTTCCAAAGGCCTCAAGTTAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
52737 ACCTTT-AAAAGCCCACAAGTCAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
*
52765 ACC-TTCCAAAGCCCACAAGTCAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
* * *
52793 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
* *
52822 CCCTTTTCAAAAGCCCACAAGTTAGTGGCA
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA
* *
52852 CCCTTTTCCAAAGCCCACAAGTCAGTGGCA
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA
52882 ACCTTT-AAAAGCCCACAAGTCAGTGGC-
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
* * **
52909 ACCATTTTCCAAAGCACACAAGTTGGT-GCA
1 ACC--TTTCAAAAGCCCACAAGTCAGTGGCA
52939 ACCCTTTCAAAAGCCCACA
1 A-CCTTTCAAAAGCCCACA
52958 CAAGTTGGTG
Statistics
Matches: 192, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
27 5 0.03
28 63 0.33
29 53 0.28
30 69 0.36
31 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (29 bp):
ACCTTTCAAAAGCCCACAAGTCAGTGGCA
Found at i:52920 original size:58 final size:58
Alignment explanation
Indices: 52708--52957 Score: 312
Period size: 58 Copynumber: 4.3 Consensus size: 58
52698 GGCATTCCTC
* * * * *
52708 ACCTTTCCAAAGGCCTCAAGTTAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTCCAAAGCCCACAAGTCAGTGGCA
* *
52765 ACC-TTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCA
* *
52822 CCCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCA
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCA
* **
52882 ACCTTT-AAAAGCCCACAAGTCAGTGGCACCATTTTCCAAAGCACACAAGTTGGT-GCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCACC-TTTTCCAAAGCCCACAAGTCAGTGGCA
52939 ACCCTTTCAAAAGCCCACA
1 A-CCTTTCAAAAGCCCACA
52958 CAAGTTGGTG
Statistics
Matches: 171, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
55 2 0.01
56 24 0.14
57 32 0.19
58 46 0.27
59 37 0.22
60 30 0.18
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (58 bp):
ACCTTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCA
Found at i:52947 original size:117 final size:114
Alignment explanation
Indices: 52709--52957 Score: 347
Period size: 117 Copynumber: 2.1 Consensus size: 114
52699 GCATTCCTCA
* * * *
52709 CCTTTCCAAAGGCCTCAAGTTAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCCAA
1 CCTTTCAAAAGCCCACAAGTTAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
* *
52774 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAC
66 AGCCCACAAGTCAGTGGCACCTTTTCCAAAGCACACAAGTCAGTGGCAC
* * *
52823 CCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTT
1 CC-TTTCAAAAGCCCACAAGTTAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCAACCTTC
**
52888 AAAAGCCCACAAGTCAGTGGCACCATTTTCCAAAGCACACAAGTTGGT-GCAAC
63 AAAAGCCCACAAGTCAGTGGCACC-TTTTCCAAAGCACACAAGTCAGTGGC-AC
52941 CCTTTCAAAAGCCCACA
1 CCTTTCAAAAGCCCACA
52958 CAAGTTGGTG
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
114 2 0.02
115 25 0.21
116 3 0.03
117 65 0.55
118 24 0.20
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (114 bp):
CCTTTCAAAAGCCCACAAGTTAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
AGCCCACAAGTCAGTGGCACCTTTTCCAAAGCACACAAGTCAGTGGCAC
Found at i:53727 original size:19 final size:18
Alignment explanation
Indices: 53702--53766 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
53692 ATTTCAACGA
53702 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
53720 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
53736 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
53752 TTTTGTATCGATACA
1 -TTTGTATCGATACA
53767 ATGTACAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:53740 original size:32 final size:32
Alignment explanation
Indices: 53704--53771 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
53694 TTCAACGATT
53704 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
53736 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
53768 TGTA
1 TGTA
53772 CAGTTACGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:53741 original size:13 final size:13
Alignment explanation
Indices: 53723--53747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53713 ACATAAGTGT
53723 TGTATCGATACAA
1 TGTATCGATACAA
53736 TGTATCGATACA
1 TGTATCGATACA
53748 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:53837 original size:13 final size:13
Alignment explanation
Indices: 53819--53843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53809 ATTACTCAAA
53819 TGTATCGATACAT
1 TGTATCGATACAT
53832 TGTATCGATACA
1 TGTATCGATACA
53844 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:53896 original size:52 final size:52
Alignment explanation
Indices: 53852--53980 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
53842 CACTGATCTT
53852 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
53904 TGTATCGATACATACAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
53956 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
53981 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:58116 original size:20 final size:19
Alignment explanation
Indices: 58093--58133 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
58083 CATTTCAGAC
*
58093 ATGTATCGATACATTCACTT
1 ATGTATCAATACATTCA-TT
58113 ATGTATCAATACATTCATT
1 ATGTATCAATACATTCATT
58132 AT
1 AT
58134 TTGTATCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (19 bp):
ATGTATCAATACATTCATT
Found at i:59250 original size:164 final size:165
Alignment explanation
Indices: 58989--59400 Score: 374
Period size: 164 Copynumber: 2.5 Consensus size: 165
58979 GAAATTCGTA
* * * * * *
58989 AAATATCATTATTTAATTATAATCAAATCAGTTTTGAAAAATTCCTTTTATTTCA-TAAGTTAT-
1 AAATATCATTATTTAATAATAAT-TAATCAG-TTTCAAAAATTCCTTTTATTTTATTAATTTTTC
** * ** *
59052 TGATTTTCTTTGGAATTCTCCCTATTTCCAAAATACAG-AGTTTTCTCTTCCGTAAATT-TTTTC
64 TTTTTTTCTTTGAAATTCTCCCTATTTCCAAAATA-AGAAGTTTTCTAGTCCGT-AATTATTCTC
*
59115 GAGAGGA-TTTTCACGGGTTTATAAATTTTAAAATTCATC
127 GAGAGGATTTTTC-CGGGTTTATAAATTTTAAAATTAATC
* * *
59154 ATATATTATTATTTAACTCATAATTAATCAGTTTCAAAAATTCCTTTTATTTTATTAATTTTTCT
1 AAATATCATTATTTAA-TAATAATTAATCAGTTTCAAAAATTCCTTTTATTTTATTAATTTTTCT
* * * * *
59219 TTTTTTC-TTGAAATTCT-CTTGTTTTCAAAATATGAAGTTTTCTAGTCCGTAATTATTCTGGAG
65 TTTTTTCTTTGAAATTCTCCCTATTTCCAAAATAAGAAGTTTTCTAGTCCGTAATTATTCTCGAG
* ** *** *
59282 GGGATTTTTCTTGGTTTATGTTTTTTAATATTAATC
130 AGGATTTTTCCGGGTTTATAAATTTTAAAATTAATC
* * * *
59318 AAATATCATCATTTAATTAAT-AGTAAGTCAGTTTCAAGAAATT-CATTTATTTTCTTAAGTTTT
1 AAATATCATTATTTAA-TAATAATTAA-TCAGTTTCAA-AAATTCCTTTTATTTTATTAA-TTTT
*
59381 TCATTTTTTCTTTGAAATTC
62 TCTTTTTTTCTTTGAAATTC
59401 CTCTATTCTT
Statistics
Matches: 201, Mismatches: 36, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
163 9 0.04
164 113 0.56
165 58 0.29
166 21 0.10
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (165 bp):
AAATATCATTATTTAATAATAATTAATCAGTTTCAAAAATTCCTTTTATTTTATTAATTTTTCTT
TTTTTCTTTGAAATTCTCCCTATTTCCAAAATAAGAAGTTTTCTAGTCCGTAATTATTCTCGAGA
GGATTTTTCCGGGTTTATAAATTTTAAAATTAATC
Found at i:60039 original size:11 final size:11
Alignment explanation
Indices: 60023--60057 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
60013 TTTAGCTTCC
60023 AAAAGAAAAAA
1 AAAAGAAAAAA
60034 AAAAGAAAGAAA
1 AAAAGAAA-AAA
60046 AAAAGAAAAAA
1 AAAAGAAAAAA
60057 A
1 A
60058 GAAAAAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:60044 original size:15 final size:16
Alignment explanation
Indices: 60023--60082 Score: 70
Period size: 15 Copynumber: 3.8 Consensus size: 16
60013 TTTAGCTTCC
60023 AAAAGAAAAAAA-AAA
1 AAAAGAAAAAAAGAAA
*
60038 GAAAGAAAAAAAGAAA
1 AAAAGAAAAAAAGAAA
*
60054 AAAAG-AAAAAAGAGAG
1 AAAAGAAAAAAAGA-AA
60070 AAAAGTAAAAAAA
1 AAAAG-AAAAAAA
60083 TTAAGCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
15 19 0.50
16 13 0.34
18 6 0.16
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAAAGAAA
Found at i:60050 original size:8 final size:8
Alignment explanation
Indices: 60023--60082 Score: 70
Period size: 8 Copynumber: 7.5 Consensus size: 8
60013 TTTAGCTTCC
60023 AAAAGAAA
1 AAAAGAAA
60031 AAAA-AAA
1 AAAAGAAA
*
60038 GAAAGAAA
1 AAAAGAAA
60046 AAAAGAAA
1 AAAAGAAA
60054 AAAAG-AA
1 AAAAGAAA
*
60061 AAAAGAGAG
1 AAAAGA-AA
60070 AAAAGTAAA
1 AAAAG-AAA
60079 AAAA
1 AAAA
60083 TTAAGCAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
7 13 0.30
8 19 0.43
9 11 0.25
10 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (8 bp):
AAAAGAAA
Found at i:60050 original size:23 final size:23
Alignment explanation
Indices: 60023--60082 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
60013 TTTAGCTTCC
60023 AAAAGAAAAAAAAAAGAAAGA-AA
1 AAAAGAAAAAAAAAA-AAAGAGAA
*
60046 AAAAGAAAAAAAGAAAAAAGAGAG
1 AAAAGAAAAAAA-AAAAAAGAGAA
*
60070 AAAAGTAAAAAAA
1 AAAAGAAAAAAAA
60083 TTAAGCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 18 0.55
24 15 0.45
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAGAAAAAAAAAAAAAGAGAA
Found at i:62058 original size:27 final size:27
Alignment explanation
Indices: 62028--62094 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
62018 AGAAAAACGG
62028 GGTTGAAGTATCCCCTCGAAAGAGTAA
1 GGTTGAAGTATCCCCTCGAAAGAGTAA
* **
62055 GGTTGGAA-TATCCCCTCGGAAGAGTGG
1 GGTT-GAAGTATCCCCTCGAAAGAGTAA
*
62082 GGTTGGAGTATCC
1 GGTTGAAGTATCC
62095 TTAACAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 29 0.85
28 3 0.09
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (27 bp):
GGTTGAAGTATCCCCTCGAAAGAGTAA
Found at i:63705 original size:13 final size:13
Alignment explanation
Indices: 63687--63712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63677 TACACAACAT
63687 ATGTATCGATACA
1 ATGTATCGATACA
63700 ATGTATCGATACA
1 ATGTATCGATACA
63713 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:63710 original size:32 final size:33
Alignment explanation
Indices: 63669--63733 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
63659 TAGCCAAACT
*
63669 TGTATCGATACAC-AACATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
63701 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
63734 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:69887 original size:13 final size:13
Alignment explanation
Indices: 69869--69906 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
69859 CATTTTTCTT
69869 TGTATCAATACAA
1 TGTATCAATACAA
*
69882 TGTATCAATACAC
1 TGTATCAATACAA
*
69895 TGTATCGATACA
1 TGTATCAATACA
69907 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:70061 original size:20 final size:19
Alignment explanation
Indices: 70020--70062 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
70010 ATCTTTTGCA
70020 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
70040 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
70060 AAA
1 AAA
70063 ACCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:72375 original size:20 final size:21
Alignment explanation
Indices: 72352--72406 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
72342 ACAATTCAAA
**
72352 GTATCGATACATGTTGAA-AT
1 GTATCGATACATGTAAAAGAT
* *
72372 GTATCGATTCATGAAAAAGAT
1 GTATCGATACATGTAAAAGAT
72393 GTATCGATACATGT
1 GTATCGATACATGT
72407 CATTGGAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (21 bp):
GTATCGATACATGTAAAAGAT
Found at i:72472 original size:13 final size:13
Alignment explanation
Indices: 72454--72479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72444 TACACAACAT
72454 ATGTATCGATACA
1 ATGTATCGATACA
72467 ATGTATCGATACA
1 ATGTATCGATACA
72480 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:72477 original size:32 final size:33
Alignment explanation
Indices: 72436--72500 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
72426 TAGCCAAACT
*
72436 TGTATCGATACAC-AACATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
72468 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
72501 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:74722 original size:16 final size:16
Alignment explanation
Indices: 74698--74737 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
74688 GTTCAACTAA
*
74698 AAAAAAAAGAAAAAAG
1 AAAAGAAAGAAAAAAG
*
74714 AAAAGAAAGAAAAGAG
1 AAAAGAAAGAAAAAAG
*
74730 AGAAGAAA
1 AAAAGAAA
74738 TAGAAACAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAAAAG
Found at i:76556 original size:96 final size:97
Alignment explanation
Indices: 76421--76666 Score: 361
Period size: 96 Copynumber: 2.5 Consensus size: 97
76411 AATTTTATTT
* * ** *
76421 ATCGGGGATACTCCAACCTTATTCCTCTAAGGGGATACTCTAACCCCGCTTTTAAACACATCAAA
1 ATCGGGGACACTTCAACCTTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
*
76486 GTTTAAATCTTATTCTCACTTAAATTGTCACC
66 GTTTAAATCTTATTCTCACTTAAATTATCACC
* *
76518 ATCGGGGACACTTCAACC-CATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAA
1 ATCGGGGACACTTCAACCTTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
* *
76582 GTTTAAATTTTATTCTCACTTAAATTATCATC
66 GTTTAAATCTTATTCTCACTTAAATTATCACC
* *
76614 ATCGAGGACA-TTCCAACCTTATTCCTCCGAGGGGATACTCCAACCCCGTTTTT
1 ATCGGGGACACTT-CAACCTTATTCCTCCGAGGGGATACTCCAACCCCGCTTTT
76667 CAATTAAAAA
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
95 2 0.02
96 84 0.63
97 47 0.35
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (97 bp):
ATCGGGGACACTTCAACCTTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTATCACC
Found at i:85497 original size:20 final size:21
Alignment explanation
Indices: 85453--85506 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
85443 TTCTACAATT
*
85453 TGTATCGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
85474 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
85494 TGTATCGATACAT
1 TGTATCGATACAT
85507 GCTTGAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:85518 original size:21 final size:21
Alignment explanation
Indices: 85453--85526 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
85443 TTCTACAATT
*
85453 TGTATCGATACAAATAGT-AAA
1 TGTATCGATACATA-AGTGAAA
85474 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
85494 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATAAGTGAAA
*
85515 TGTATTGATACA
1 TGTATCGATACA
85527 AAACCACGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 20 0.43
21 26 0.57
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:86149 original size:374 final size:374
Alignment explanation
Indices: 85460--86205 Score: 1273
Period size: 374 Copynumber: 2.0 Consensus size: 374
85450 ATTTGTATCG
*
85460 ATACAAATAGTAAATGTATCGATACATAAGTGAATGTATCGATACATGCTTGAAATGTATTGATA
1 ATACAAATAGCAAATGTATCGATACATAAGTGAATGTATCGATACATGCTTGAAATGTATTGATA
* * *
85525 CAAAACCACGCTGCATACTGCCAAGGAAATGTATCGATACATGTTTACAATTGTATCGATACATA
66 CAAAACCACCCTGCATACTACCAAGGAAATGTATCGATACATGCTTACAATTGTATCGATACATA
* *
85590 TCTCATTGTATGATACATTCTTTTTGACCCAAATGTATCGATATATTTTTCAATGTATCGATACA
131 TCTCATTGTATGATACATTCTTTTTGACCCAAATGTATCGATACATATTTCAATGTATCGATACA
* *
85655 TGCAGGTAAATTTTCACATTTCTTGACATTTTCTTCCTTTGCCATACCACATTCAAAGCCTAATT
196 TGCAAGTAAATTTTCACATTTCGTGACATTTTCTTCCTTTGCCATACCACATTCAAAGCCTAATT
* *
85720 ACAATAAGTTTTTTGCATCATATGTGATCAGGATTCATGTCAATTGTCAAACTTCAAAATCAATC
261 ACAATAAGTTTTTTGCATCATAAGTGATCAGGATTCATGTCAATTATCAAACTTCAAAATCAATC
85785 TTTGATCACTCTTAAAACTAAAAGCATGGCATTTAATGAAAAATAGGAT
326 TTTGATCACTCTTAAAACTAAAAGCATGGCATTTAATGAAAAATAGGAT
*
85834 ATACAAATAGCAAATGTATCGATACATAAGTGAATGTATCGATATATGCTTGAAATGTATTGATA
1 ATACAAATAGCAAATGTATCGATACATAAGTGAATGTATCGATACATGCTTGAAATGTATTGATA
* *
85899 CAAAACCACCCTGCATACTACCAAGGAAATGTATCGATAGATGCTTACAATTGTATCGATACATT
66 CAAAACCACCCTGCATACTACCAAGGAAATGTATCGATACATGCTTACAATTGTATCGATACATA
*
85964 TCTCATTGTATGATACATTCCTTTTT-ACCCAAATGTATTGATACATATTTCAATGTATCGATAC
131 TCTCATTGTATGATACATT-CTTTTTGACCCAAATGTATCGATACATATTTCAATGTATCGATAC
* *
86028 ATGCAAGTAAATTTTCACATTTCGTGA-ATTTTTCTTCCTTTGCCATACCACATTCAATGCCTTA
195 ATGCAAGTAAATTTTCACATTTCGTGACA-TTTTCTTCCTTTGCCATACCACATTCAAAGCCTAA
* *
86092 TT-CAAATGAGTTTTTTGTATCATAAGTGATCAGGATTCATGTCAATTATCAAACTTCAAAATCA
259 TTAC-AATAAGTTTTTTGCATCATAAGTGATCAGGATTCATGTCAATTATCAAACTTCAAAATCA
*
86156 ATCTTTGATCACTCTTGAAACTAAAAGCATGGCATTTAATGAAAAATAGG
323 ATCTTTGATCACTCTTAAAACTAAAAGCATGGCATTTAATGAAAAATAGG
86206 TGGTGAGAAC
Statistics
Matches: 350, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
373 2 0.01
374 342 0.98
375 6 0.02
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (374 bp):
ATACAAATAGCAAATGTATCGATACATAAGTGAATGTATCGATACATGCTTGAAATGTATTGATA
CAAAACCACCCTGCATACTACCAAGGAAATGTATCGATACATGCTTACAATTGTATCGATACATA
TCTCATTGTATGATACATTCTTTTTGACCCAAATGTATCGATACATATTTCAATGTATCGATACA
TGCAAGTAAATTTTCACATTTCGTGACATTTTCTTCCTTTGCCATACCACATTCAAAGCCTAATT
ACAATAAGTTTTTTGCATCATAAGTGATCAGGATTCATGTCAATTATCAAACTTCAAAATCAATC
TTTGATCACTCTTAAAACTAAAAGCATGGCATTTAATGAAAAATAGGAT
Found at i:87652 original size:21 final size:21
Alignment explanation
Indices: 87627--87666 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
87617 AATTATTTTA
87627 AAATTCTTA-ACCATTTTTCAT
1 AAATT-TTATACCATTTTTCAT
*
87648 AAATTTTATAGCATTTTTC
1 AAATTTTATACCATTTTTC
87667 TTTGAAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.50
Consensus pattern (21 bp):
AAATTTTATACCATTTTTCAT
Found at i:91195 original size:162 final size:162
Alignment explanation
Indices: 90920--91363 Score: 570
Period size: 162 Copynumber: 2.7 Consensus size: 162
90910 CTCTTTCTCC
* * * *
90920 AAAATTTCATTTCGTGCCTTAATGGAAA-CAAGAAAAGATATGAAAAGTTTTTAAAATCTTTTAC
1 AAAATATCATTTCGTACCTTAAT-GAAACCAA-AAAAGATACGAAAAGTTTTT-AAATCTTTTAT
* * *
90984 ACCCCTATGGATTCTCATAGGAATATAAAAGATTAAAAAAATGATTAATATTTATGTCGATTATG
63 ACCCCTATGGATTCCCATAGGAATATAAAAGATTAAAAAAATGATTAATATTTATGTCAATCATG
** *
91049 AAAGTGCCAATTTAATTTTGTTTATTTATTTTTAA
128 AAAGTGCCAATTTAATTTAATTTATTTATTTTCAA
* * *
91084 AAAATATCATTTCGTACCTTAATGAAGACCCAAAAAGATACAAAAAG-TTTTGAATCTTTTATAC
1 AAAATATCATTTCGTACCTTAATGAA-ACCAAAAAAGATACGAAAAGTTTTTAAATCTTTTATAC
* * *
91148 CCCTATGGATTCCCATAGGAATATAAAAGATTAAAAAAATTATTAATATTCATTTCAATCATGAA
65 CCCTATGGATTCCCATAGGAATATAAAAGATTAAAAAAATGATTAATATTTATGTCAATCATGAA
* **
91213 ATTGTTAATTTAATTTAATTTATTTATTTTCAA
130 AGTGCCAATTTAATTTAATTTATTTATTTTCAA
* * *
91246 AAAATACCATTTCATACCTTAATGAAAACCTAAAAAGATACGAAAAGTTTTATAAATCTTTTATA
1 AAAATATCATTTCGTACCTTAATG-AAACCAAAAAAGATACGAAAAGTTTT-TAAATCTTTTATA
* * * *
91311 CCCCTACGGA-CCCCTATAAGCATATAAAAGATTAAAAAAATGATTAATATTTA
64 CCCCTATGGATTCCC-ATAGGAATATAAAAGATTAAAAAAATGATTAATATTTA
91364 ATTTTTACTA
Statistics
Matches: 244, Mismatches: 30, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
162 137 0.56
163 15 0.06
164 90 0.37
165 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (162 bp):
AAAATATCATTTCGTACCTTAATGAAACCAAAAAAGATACGAAAAGTTTTTAAATCTTTTATACC
CCTATGGATTCCCATAGGAATATAAAAGATTAAAAAAATGATTAATATTTATGTCAATCATGAAA
GTGCCAATTTAATTTAATTTATTTATTTTCAA
Found at i:96063 original size:6 final size:6
Alignment explanation
Indices: 96037--96092 Score: 58
Period size: 6 Copynumber: 8.7 Consensus size: 6
96027 TGAGATGAAG
* *
96037 AAGAAA ATAGAAA AAGTAA AAGAAA AATGAAA TTAAGAAA AAGACA AAGAAA
1 AAGAAA A-AGAAA AAGAAA AAGAAA AA-GAAA --AAGAAA AAGAAA AAGAAA
96089 AAGA
1 AAGA
96093 GGCATATTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 26 0.62
7 10 0.24
8 4 0.10
9 2 0.05
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (6 bp):
AAGAAA
Found at i:97505 original size:60 final size:60
Alignment explanation
Indices: 97351--97893 Score: 418
Period size: 60 Copynumber: 9.1 Consensus size: 60
97341 ACCAAAAACC
* * * * * * *
97351 ACCTTTCTTGACTGTATTCGGTCAAGACTTTCCTTATTTGACTATATTTGGTCAAAT-TT
1 ACCTCTCTTGACTGTATTCAGTCAAGACTTTCCTCATTTGACTGTACTCGATCAAATCTT
* * *
97410 CACCCTCACTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGA-TCGTACTCGACCAAATCTT
1 -A-CCTCTCTTGACTGTATTCAGTCAAGACTTTCCTCATTTGACT-GTACTCGATCAAATCTT
** * *
97472 ACCTCTCTTGACTGTATTTGGTCAAGACCTTCCTCATTTGACTGTATTC-AGTCAAAT-TT
1 ACCTCTCTTGACTGTATTCAGTCAAGACTTTCCTCATTTGACTGTACTCGA-TCAAATCTT
* * * * *
97531 CACCCTCACTTGACTATATTCAGTCAAGTCTTTCCTCTTTTGACTGTACTCAATCAAATCTT
1 -A-CCTCTCTTGACTGTATTCAGTCAAGACTTTCCTCATTTGACTGTACTCGATCAAATCTT
* * * *
97593 A-CTGCTCTTGATTGTATTC-GATCAAGA-TCTTCCTCATTTGACTATATTCGGGTCAAAT-TT
1 ACCT-CTCTTGACTGTATTCAG-TCAAGACT-TTCCTCATTTGACTGTACTC-GATCAAATCTT
* * * *
97653 CACCT-TCGTTTAATTGTATTTAGTCAAGA-TTATCCTCATTTGACTGTACTCAATCAAATCTT
1 -ACCTCTC--TTGACTGTATTCAGTCAAGACTT-TCCTCATTTGACTGTACTCGATCAAATCTT
* * * * *
97715 ACCGT-TCTTGACTATATTCGGTCAAGA----CCACATTTGATTGTACTCGGTCAAATCTT
1 ACC-TCTCTTGACTGTATTCAGTCAAGACTTTCCTCATTTGACTGTACTCGATCAAATCTT
* ** * * *
97771 ACCT-TGCTTGACTATATTCAGTCAAGACCATCTTTATTTGACTGTACTCAATCAAATCTT
1 ACCTCT-CTTGACTGTATTCAGTCAAGACTTTCCTCATTTGACTGTACTCGATCAAATCTT
* * * * * *
97831 ACC-CTGTTCGACTGTACTCAATCAAGTCTTTCTTCATTTGTCTGTACTCGATCAAATCTT
1 ACCTCTCTT-GACTGTATTCAGTCAAGACTTTCCTCATTTGACTGTACTCGATCAAATCTT
97891 ACC
1 ACC
97894 CGGCATGACT
Statistics
Matches: 389, Mismatches: 66, Indels: 56
0.76 0.13 0.11
Matches are distributed among these distances:
55 2 0.01
56 48 0.12
59 9 0.02
60 173 0.44
61 110 0.28
62 46 0.12
63 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (60 bp):
ACCTCTCTTGACTGTATTCAGTCAAGACTTTCCTCATTTGACTGTACTCGATCAAATCTT
Found at i:97515 original size:30 final size:30
Alignment explanation
Indices: 97358--97700 Score: 156
Period size: 30 Copynumber: 11.3 Consensus size: 30
97348 ACCACCTTTC
*
97358 TTGACTGTATTCGGTCAAGACTTTCCTTAT
1 TTGACTGTATTCGGTCAAGACTTTCCTCAT
* * *
97388 TTGACTATATTTGGTCAA-A-TTTCACCCTCAC
1 TTGACTGTATTCGGTCAAGACTTT---CCTCAT
* *
97419 TTGACTGTATTCAGTCAAGTCTTTCCTCAT
1 TTGACTGTATTCGGTCAAGACTTTCCTCAT
* ** *
97449 TTGA-TCGTACTCGACCAA-ATCTTACCTC-T
1 TTGACT-GTATTCGGTCAAGA-CTTTCCTCAT
* *
97478 CTTGACTGTATTTGGTCAAGACCTTCCTCAT
1 -TTGACTGTATTCGGTCAAGACTTTCCTCAT
* *
97509 TTGACTGTATTCAGTCAA-A-TTTCACCCTCAC
1 TTGACTGTATTCGGTCAAGACTTT---CCTCAT
* * * *
97540 TTGACTATATTCAGTCAAGTCTTTCCTCTT
1 TTGACTGTATTCGGTCAAGACTTTCCTCAT
* ** *
97570 TTGACTGTACTCAATCAA-A-TCTTACTGC-T
1 TTGACTGTATTCGGTCAAGACT-TTCCT-CAT
* *
97599 CTTGATTGTATTCGATCAAGA-TCTTCCTCAT
1 -TTGACTGTATTCGGTCAAGACT-TTCCTCAT
* *
97630 TTGACTATATTCGGGTCAA-A-TTTCACCTTCGT
1 TTGACTGTATTC-GGTCAAGACTTT--CC-TCAT
* * **
97662 TTAATTGTATTTAGTCAAGA-TTATCCTCAT
1 TTGACTGTATTCGGTCAAGACTT-TCCTCAT
97692 TTGACTGTA
1 TTGACTGTA
97701 CTCAATCAAA
Statistics
Matches: 236, Mismatches: 50, Indels: 54
0.69 0.15 0.16
Matches are distributed among these distances:
28 6 0.03
29 11 0.05
30 132 0.56
31 66 0.28
32 14 0.06
33 7 0.03
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (30 bp):
TTGACTGTATTCGGTCAAGACTTTCCTCAT
Found at i:97555 original size:121 final size:121
Alignment explanation
Indices: 97351--97933 Score: 537
Period size: 121 Copynumber: 4.9 Consensus size: 121
97341 ACCAAAAACC
* * * *
97351 ACCTTTCTTGACTGTATTCGGTCAAGACTTTCCTTATTTGACTATATTTGGTCAAATTTCACCCT
1 ACCTCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTATATTCGGTCAAATTTCACCCT
* * *
97416 CACTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGA-TCGTACTCGACCAAATCTT
66 CACTTGACTATATTCAGTCAAGTCTTTCCTCATTTGACT-GTACTCAATCAAATCTT
* * *
97472 ACCTCTCTTGACTGTATTTGGTCAAGACCTTCCTCATTTGACTGTATTCAGTCAAATTTCACCCT
1 ACCTCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTATATTCGGTCAAATTTCACCCT
*
97537 CACTTGACTATATTCAGTCAAGTCTTTCCTCTTTTGACTGTACTCAATCAAATCTT
66 CACTTGACTATATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAATCAAATCTT
* * *
97593 A-CTGCTCTTGATTGTATTCGATCAAGATCTTCCTCATTTGACTATATTCGGGTCAAATTTCACC
1 ACCT-CTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTATATTC-GGTCAAATTTCACC
* ** * * * * *
97657 TTCGTTTAATTGTATTTAGTCAAGAT-TATCCTCATTTGACTGTACTCAATCAAATCTT
64 CTCACTTGACTATATTCAGTCAAG-TCTTTCCTCATTTGACTGTACTCAATCAAATCTT
* * * * *
97715 ACCGT-TCTTGACTATATTCGGTCAAGA----CCACATTTGATTGTACTCGGTCAAATCTT-A-C
1 ACC-TCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTATATTCGGTCAAAT-TTCACC
** * ** * *
97773 CTTGCTTGACTATATTCAGTCAAGACCATCTTTATTTGACTGTACTCAATCAAATCTT
64 CTCACTTGACTATATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAATCAAATCTT
* * ** * * * * * * *
97831 ACC-CTGTTCGACTGTACTCAATCAAGTCTTTCTTCATTTGTCTGTACTCGATCAAATCTT-ACC
1 ACCTCTCTT-GACTGTATTCGGTCAAGACCTTCCTCATTTGACTATATTCGGTCAAAT-TTCACC
* ** * *
97894 CGGCA--TGACTATATTTGGTCAAGTTTTTCTTCATTTGACT
64 C-TCACTTGACTATATTCAGTCAAGTCTTTCCTCATTTGACT
97934 ATATTGGATC
Statistics
Matches: 381, Mismatches: 65, Indels: 33
0.80 0.14 0.07
Matches are distributed among these distances:
115 3 0.01
116 63 0.17
117 9 0.02
118 16 0.04
120 55 0.14
121 151 0.40
122 81 0.21
123 2 0.01
124 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (121 bp):
ACCTCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTATATTCGGTCAAATTTCACCCT
CACTTGACTATATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAATCAAATCTT
Found at i:97846 original size:30 final size:28
Alignment explanation
Indices: 97807--97894 Score: 95
Period size: 30 Copynumber: 3.0 Consensus size: 28
97797 ACCATCTTTA
97807 TTTGACTGTACTCAATCAAATCTTACCC
1 TTTGACTGTACTCAATCAAATCTTACCC
* * *
97835 TGTTCGACTGTACTCAATCAAGTCTTTCTTCA
1 T-TT-GACTGTACTCAATCAAATCTTAC--CC
* *
97867 TTTGTCTGTACTCGATCAAATCTTACCC
1 TTTGACTGTACTCAATCAAATCTTACCC
97895 GGCATGACTA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 40 0.83
31 2 0.04
32 2 0.04
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (28 bp):
TTTGACTGTACTCAATCAAATCTTACCC
Found at i:97935 original size:30 final size:30
Alignment explanation
Indices: 97899--97986 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
97889 TTACCCGGCA
*
97899 TGACTATATTTGGTCAAGTTTTTCTTCATT
1 TGACTATATTTGGTCAAGTTTTTCCTCATT
* *
97929 TGACTATA-TTGGATCAACTTTTACCTCATT
1 TGACTATATTTGG-TCAAGTTTTTCCTCATT
* * * *
97959 TAATTATATTCGGTCAAGCTTTTCCTCA
1 TGACTATATTTGGTCAAGTTTTTCCTCA
97987 ACTTCCTACA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 4 0.09
30 40 0.85
31 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (30 bp):
TGACTATATTTGGTCAAGTTTTTCCTCATT
Found at i:99148 original size:348 final size:347
Alignment explanation
Indices: 98487--99182 Score: 1214
Period size: 348 Copynumber: 2.0 Consensus size: 347
98477 ATTTCTTAAC
*
98487 AAATTCTAAAAACTACATCTGCAAATGATACCATGGTCAAATTTTCTATTTTTGAAATTTTTTGA
1 AAATTCTAAAAACTACATCTGCAAATGATACCATGGTCAAATTTTCTATTTTTAAAATTTTTTGA
*
98552 GATTTTTTTGAAAAACTTGAGAAATTAACTATCGTATATTTTTACGATACTATGATAGTTTTTAT
66 GATTTTTTCGAAAAACTTGAGAAATTAACTATCGTATATTTTTACGATACTATGATAGTTTTTAT
* *
98617 GCCAATACATTCCTCGAAAAATTAAGAATATTCAAGAAAAATATCTATTAGGATTTTACACCACA
131 GCCAATACATTCCTCGAAAAATCAAGAATATTCAAAAAAAATATCTATTAGGATTTTACACCACA
* * *
98682 AGGTGTCAATTGGAGAATTTTATCAATTAATTTTAAATTTTTCATGGTATGGCAACTACCGTATT
196 AGGTGTCAATTGGAGAATTTTATCAATTAATTTTAAATTTTTCACGATATGGCAACTACCATATT
* *
98747 TTTTAATTTTTATTTCCCTTTAATTTGTCGTGAATTGTATAAATTTATCTTCTTTATTTTAGAAA
261 TTTCAATTTTTATTTCCCTTTAATTTGTCGCGAATTGTATAAATTTATCTTCTTTATTTTAGAAA
98812 TCAATATTTAGTTCAATACATG
326 TCAATATTTAGTTCAATACATG
* *
98834 AAATTCTGAAAACTACATCTGCAGGATGATACCATGGTCAAATTTTCTATTTTTAAAATTTTTTG
1 AAATTCTAAAAACTACATCTGCA-AATGATACCATGGTCAAATTTTCTATTTTTAAAATTTTTTG
98899 AGATTTTTTCGAAAAACTTGAGAAATTAACT-TCGTATATTTTTACCGATACTATGATAGTTTTT
65 AGATTTTTTCGAAAAACTTGAGAAATTAACTATCGTATATTTTTA-CGATACTATGATAGTTTTT
* *
98963 ATGCCAATACATTCCTCGAAAAATCAAGAATATTCAAAAAAAATATCTATTGGGATTTTATACCA
129 ATGCCAATACATTCCTCGAAAAATCAAGAATATTCAAAAAAAATATCTATTAGGATTTTACACCA
* *
99028 CAAGGTGTCAATTGGGGAATTTTATCAATTAATTTTAAATTTTTCACGATATGGCAACTACTATA
194 CAAGGTGTCAATTGGAGAATTTTATCAATTAATTTTAAATTTTTCACGATATGGCAACTACCATA
*
99093 TTTTTCAATTTTTATTTCCCTTTAATTTGTTGCGAATTGTATAAATTTATCTTCTTTATTTTAGA
259 TTTTTCAATTTTTATTTCCCTTTAATTTGTCGCGAATTGTATAAATTTATCTTCTTTATTTTAGA
*
99158 AATCAATATTTAGTTTAATACATG
324 AATCAATATTTAGTTCAATACATG
99182 A
1 A
99183 TTTCGAAGTC
Statistics
Matches: 330, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
347 35 0.11
348 295 0.89
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (347 bp):
AAATTCTAAAAACTACATCTGCAAATGATACCATGGTCAAATTTTCTATTTTTAAAATTTTTTGA
GATTTTTTCGAAAAACTTGAGAAATTAACTATCGTATATTTTTACGATACTATGATAGTTTTTAT
GCCAATACATTCCTCGAAAAATCAAGAATATTCAAAAAAAATATCTATTAGGATTTTACACCACA
AGGTGTCAATTGGAGAATTTTATCAATTAATTTTAAATTTTTCACGATATGGCAACTACCATATT
TTTCAATTTTTATTTCCCTTTAATTTGTCGCGAATTGTATAAATTTATCTTCTTTATTTTAGAAA
TCAATATTTAGTTCAATACATG
Found at i:99757 original size:166 final size:165
Alignment explanation
Indices: 99503--99882 Score: 487
Period size: 166 Copynumber: 2.3 Consensus size: 165
99493 TGATTCATAG
* * * *
99503 TAAATCAATTTTAAGAAATTAATTCATTTTCATAAGTTTTGAATTTTTTCTTTGAAATGCCATTT
1 TAAATCAGTTTTAAGAAATTCATTTATTTTCATAAGTTTTGAATTTTTTCTTCGAAATGCCATTT
* **
99568 TCTCGAAAAATCGAGTTTTCTACTCCATAAATTTTTTTAGGGAGA-TTTTCTTTGATTTAAAATT
66 TCTCGAAAAATCGAGTTTTCTACTCCATAAATATTTTTAGGGAGATTTTTC-TCAATTTAAAATT
* * *
99632 TTTAGAATTTATCTAATATTTTCATTAAACTCCTAT
130 TTTAAAATTCATCTAACATTTTCATTAAACTCCTAT
* * *
99668 TAAATCAGTTTTGAA-AAATTCATTTATTTTCATGAGTTTTGAATTTTTTCTTCGAACT-CTATT
1 TAAATCAGTTTT-AAGAAATTCATTTATTTTCATAAGTTTTGAATTTTTTCTTCGAAATGCCATT
* *
99731 GATTTTCGAAAAATCGAGTTTTCTACTCCATAAATATTTTTGGGGAGATTTTTCTCAATTTAAAA
65 --TTCTCGAAAAATCGAGTTTTCTACTCCATAAATATTTTTAGGGAGATTTTTCTCAATTTAAAA
* *
99796 TTTTTAAAATTCATCTAACATTTTTATTAAACTTCTAT
128 TTTTTAAAATTCATCTAACATTTTCATTAAACTCCTAT
* * * * * * *
99834 AAAATTAGTTTCAATAAATTCAATTAATTTCATAAATTTTGAATTTTTT
1 TAAATCAGTTTTAAGAAATTCATTTATTTTCATAAGTTTTGAATTTTTT
99883 TGTATATACT
Statistics
Matches: 186, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
164 4 0.02
165 51 0.27
166 126 0.68
167 5 0.03
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (165 bp):
TAAATCAGTTTTAAGAAATTCATTTATTTTCATAAGTTTTGAATTTTTTCTTCGAAATGCCATTT
TCTCGAAAAATCGAGTTTTCTACTCCATAAATATTTTTAGGGAGATTTTTCTCAATTTAAAATTT
TTAAAATTCATCTAACATTTTCATTAAACTCCTAT
Found at i:99864 original size:19 final size:18
Alignment explanation
Indices: 99836--99871 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
99826 ACTTCTATAA
*
99836 AATTAGTTTCAATAAATTC
1 AATTAATTTC-ATAAATTC
99855 AATTAATTTCATAAATT
1 AATTAATTTCATAAATT
99872 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (18 bp):
AATTAATTTCATAAATTC
Found at i:100193 original size:13 final size:13
Alignment explanation
Indices: 100175--100214 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
100165 GGAGCTCAAC
*
100175 AAAAAGATAGAAA
1 AAAAAGAAAGAAA
100188 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
100201 AAATAAGAAA-AAA
1 AAA-AAGAAAGAAA
100214 A
1 A
100215 TAGTGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (13 bp):
AAAAAGAAAGAAA
Found at i:101244 original size:13 final size:13
Alignment explanation
Indices: 101226--101250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101216 ATGTTGCCTA
101226 GTATCGATACATT
1 GTATCGATACATT
101239 GTATCGATACAT
1 GTATCGATACAT
101251 GTTCTTTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:101247 original size:33 final size:32
Alignment explanation
Indices: 101205--101268 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
101195 CACGTCCTGA
101205 TGTATCGATACATGTTGCCTAGTATCGATACAT
1 TGTATCGATACATGTT-CCTAGTATCGATACAT
* *
101238 TGTATCGATACATGTTCTTTGTATCGATACA
1 TGTATCGATACATGTTCCTAGTATCGATACA
101269 CCATGAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATGTTCCTAGTATCGATACAT
Found at i:102539 original size:20 final size:20
Alignment explanation
Indices: 102516--102617 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
102506 CATATCTAGA
102516 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
102536 TGTATCGATAC---A----T
1 TGTATCGATACATTATGCTT
102549 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
102569 TGTATCGATAC---A----T
1 TGTATCGATACATTATGCTT
102582 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
102602 TGTATCGATACATTAT
1 TGTATCGATACATTAT
102618 ATTGATACAT
Statistics
Matches: 68, Mismatches: 0, Indels: 28
0.71 0.00 0.29
Matches are distributed among these distances:
13 24 0.35
16 2 0.03
17 2 0.03
20 40 0.59
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:102553 original size:13 final size:13
Alignment explanation
Indices: 102535--102595 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
102525 ACATTATGCT
102535 TTGTATCGATACA
1 TTGTATCGATACA
102548 TTGTATCGATACA
1 TTGTATCGATACA
*
102561 -T-TAT-G---CT
1 TTGTATCGATACA
102568 TTGTATCGATACA
1 TTGTATCGATACA
102581 TTGTATCGATACA
1 TTGTATCGATACA
102594 TT
1 TT
102596 ATGCTTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.05
11 3 0.08
12 1 0.03
13 29 0.73
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:102558 original size:33 final size:33
Alignment explanation
Indices: 102516--102627 Score: 206
Period size: 33 Copynumber: 3.4 Consensus size: 33
102506 CATATCTAGA
102516 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
102549 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
102582 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
* *
102615 TATATTGATACAT
1 TGTATCGATACAT
102628 GCTCATTGTA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATTATGCTTTGTATCGATACAT
Found at i:103145 original size:13 final size:13
Alignment explanation
Indices: 103124--103155 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
103114 TCTATACATT
*
103124 ATACTTTGTATCG
1 ATACATTGTATCG
103137 ATACATTGTATCG
1 ATACATTGTATCG
103150 ATACAT
1 ATACAT
103156 GCACAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:105106 original size:145 final size:144
Alignment explanation
Indices: 104921--105204 Score: 559
Period size: 145 Copynumber: 2.0 Consensus size: 144
104911 ATGGCGCCGA
104921 CGAAAATGGTTTTTTAGATTATCATGACTTTTTGTTAAGCCCGAATCCATTTCCCATCGTCCCTA
1 CGAAAATGGTTTTTTAGATTATCATGACTTTTTGTTAAGCCCGAATCCATTTCCCATCGTCCCTA
104986 GTCGAGATAGAGTGTTCGGAAGGCAAAAAGGATGAAAAAAGTCGCATTTTTATCCAAATGTATCG
66 GTCGAGATAGAGTGTTCGGAAGGCAAAAAGGATG-AAAAAGTCGCATTTTTATCCAAATGTATCG
105051 ATACATTTCTGGCAG
130 ATACATTTCTGGCAG
105066 CGAAAATGGTTTTTTAGATTATCATGACTTTTTGTTAAGCCCGAATCCATTTCCCATCGTCCCTA
1 CGAAAATGGTTTTTTAGATTATCATGACTTTTTGTTAAGCCCGAATCCATTTCCCATCGTCCCTA
105131 GTCGAGATAGAGTGTTCGGAAGGCAAAAAGGATGAAAAAGTCGCATTTTTATCCAAATGTATCGA
66 GTCGAGATAGAGTGTTCGGAAGGCAAAAAGGATGAAAAAGTCGCATTTTTATCCAAATGTATCGA
105196 TACATTTCT
131 TACATTTCT
105205 AGAATGTATC
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
144 40 0.29
145 99 0.71
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (144 bp):
CGAAAATGGTTTTTTAGATTATCATGACTTTTTGTTAAGCCCGAATCCATTTCCCATCGTCCCTA
GTCGAGATAGAGTGTTCGGAAGGCAAAAAGGATGAAAAAGTCGCATTTTTATCCAAATGTATCGA
TACATTTCTGGCAG
Found at i:105295 original size:13 final size:13
Alignment explanation
Indices: 105277--105304 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
105267 ACAAACAGTA
105277 AATGTATCGATAC
1 AATGTATCGATAC
105290 AATGTATCGATAC
1 AATGTATCGATAC
105303 AA
1 AA
105305 AGTTACCCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:105388 original size:33 final size:33
Alignment explanation
Indices: 105331--105396 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
105321 GCCAAGGAAA
*
105331 TGTATCGATACATTATTCAATGTATTGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
**
105364 TGTATCGATACATTGA-TCTTTGTATCGATACAT
1 TGTATCGATACATT-ATTCAATGTATCGATACAT
105397 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:108612 original size:15 final size:15
Alignment explanation
Indices: 108592--108626 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
108582 AACCATCAAA
108592 GATAATGAAGATAAT
1 GATAATGAAGATAAT
*
108607 GATAATGATGATAAT
1 GATAATGAAGATAAT
108622 GATAA
1 GATAA
108627 AGTTGACTCG
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:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (15 bp):
GATAATGAAGATAAT
Found at i:113156 original size:13 final size:13
Alignment explanation
Indices: 113138--113164 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
113128 ACAATGTTCT
113138 TTGTATCGATACA
1 TTGTATCGATACA
113151 TTGTATCGATACA
1 TTGTATCGATACA
113164 T
1 T
113165 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:115698 original size:13 final size:13
Alignment explanation
Indices: 115677--115708 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
115667 TCGATACATT
*
115677 ATACTTTGTATCG
1 ATACATTGTATCG
115690 ATACATTGTATCG
1 ATACATTGTATCG
115703 ATACAT
1 ATACAT
115709 GTTCATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:115738 original size:20 final size:19
Alignment explanation
Indices: 115692--115748 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
115682 TTGTATCGAT
*
115692 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
115711 TCATTGTATTGATACATGC
1 ACATTGTATCGATACATGC
115730 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
115749 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:117233 original size:688 final size:688
Alignment explanation
Indices: 115905--117253 Score: 1871
Period size: 688 Copynumber: 2.0 Consensus size: 688
115895 TAGCAATGGC
* * *
115905 AATGCATGGAAACAAGCACCAAACAAGTTAATAACGGCTAGAAACACAATCATTCAATCTCCAAC
1 AATGCATGAAAACAAGCACCAAACAAGTCAACAACGGCTAGAAACACAATCATTCAATCTCCAAC
* *
115970 AAGTATGTCAACATTCAAGACTATAAATTTGAGTTTCCAACAGCTGAATATCAAGAGAATCCATC
66 AAGTATGTCAACATTCAAGACTATAAATTTGAGTTTCCAACAGCTAAATATCAAGAGAAACCATC
*
116035 AAGAAACACCAAGAGATCAAAGCATTCAAAGTTTTACTTACTTTCTCATTTTCAAGAGCTTTTAC
131 AAGAAACACCAAGAGATCAAAGCATACAAAGTTTTACTTACTTTCTCATTTTCAAGAGCTTTTAC
* * * *
116100 ATCATTGTTGTTATTCTTTGAAAGCTCTTTGTTTTTAATTTGTGTTTATTCTTTCACAAACATCA
196 ATCATTATTGTTATTCTTTGAAAGCTCTTTGTTTTTAATTTGTGCTTATTCTCTCACAAACACCA
* *
116165 GCCTATTTAGAAGCAATTTTCATTTGTACAATTTTCTTGAATTGTGTAAAGTTGCATTCAACCTT
261 GCCTACTTAGAAGCAATTTTCATTTGTACAATTTCCTTGAATTGTGTAAAGTTGCATTCAACCTT
** * * *
116230 GGGTTATGATTTCTCAAGAATTTGGGGTATAATTCTTGGAGAGATTGTGAGGTTTTTATCTTAGC
326 GGGTTACAATCTCTCAAGAATTTGGGGTATAATTCTTGAAGAGATTGTGAGGTTCTTATCTTAGC
* * *
116295 CTTGAAAAGATAAAGTGTTGTAAGGTTATACCTTTCCTAAAAGGTAAAACAATTCGTGTAGTGAA
391 CTTGAAAAGATAAAGCGTTGTAAGGTTATACCTTTCCTAAAAGATAAAACAATTCATGTAGTGAA
* * *
116360 TTGTGGTAACACTTGACAAGGAAGTGTCGAGGAGAGAGGATGTAGGTACCGTGTTTGGACCGAAC
456 TTGTGATAACACTCGACAAGGAAGTGTCGAGGAGAGAGGAGGTAGGTACCGTGTTTGGACCGAAC
*
116425 CTCTATAAATATTCGTGTCAAGCCTTCTCATTTTCTTTCTCTCTTTACTTTCAAGTTGTTTTCGA
521 CTCTATAAATATTCGTGTCAAGCCTTCTCATTTTCCTTCTCTCTTTACTTTCAAGTTGTTTTCGA
* **
116490 AACAATTTCTTCAAAACCTTTGAATTTCGAAAAAAACAAATTCACCCCCTCTTGGTTCATCCATT
586 AACAATTTCTTCAAAACATTCAAATTTCGAAAAAAACAAATTCACCCCCTCTTGGTTCATCCATT
116555 CCTAAAGCTTACAAAGAGTATCGATACATAGTAACAGG
651 CCTAAAGCTTACAAAGAGTATCGATACATAGTAACAGG
* * *
116593 AATGCATGAAAACAAGCACCAAATAAGTCAACAATGGCTAGAAACACATTCATTCAATCTCCAA-
1 AATGCATGAAAACAAGCACCAAACAAGTCAACAACGGCTAGAAACACAATCATTCAATCTCCAAC
* * * *
116657 AGTGTATGTCAATATTCTAGCCTATAAATTTGAGTTTCCAACAGCTAAAGTA-CAAGAGAAACCA
66 A-AGTATGTCAACATTCAAGACTATAAATTTGAGTTTCCAACAGCTAAA-TATCAAGAGAAACCA
* * * *
116721 TCTAGAAACATCAAGAGATCAAAGCATACAAAGTTTTATTTATTTTCTCATTTTCAAG-GACTTT
129 TCAAGAAACACCAAGAGATCAAAGCATACAAAGTTTTACTTACTTTCTCATTTTCAAGAG-CTTT
**
116785 TACATTCATTATTGTTATTCTTTGAAAGCTCTTT-TATATTTGTTTTGTGCTTATTCTCTCACAA
193 TACA-TCATTATTGTTATTCTTTGAAAGCTCTTTGT-T-TTTAATTTGTGCTTATTCTCTCACAA
* * *
116849 ACACCAGCCTACTTAGAGGCAATTCTT-GTTTGTGA-AATTTCCTTGAATTG-GTTAAGGTTGCA
255 ACACCAGCCTACTTAGAAGCAATT-TTCATTTGT-ACAATTTCCTTGAATTGTG-TAAAGTTGCA
* * * *
116911 TTCAACC-TGGGTTGCAATCTCTTAAGAATTTTGGGTATAATTGTTGAAGAGATTGTGAGGTTCT
317 TTCAACCTTGGGTTACAATCTCTCAAGAATTTGGGGTATAATTCTTGAAGAGATTGTGAGGTTCT
* * * *
116975 TATCTTAGCCTTGAAAAGAT-AAGCGTTGTAAGTTTATACCTTTCCTGAATGAT-AAACATTTCA
382 TATCTTAGCCTTGAAAAGATAAAGCGTTGTAAGGTTATACCTTTCCTAAAAGATAAAACAATTCA
* * **
117038 TGTAGTGGATTGTGATAACTCTCGACAAGGAAGTGTCGAGGAGAGAGGAGGTAGGTGTCGTGTTT
447 TGTAGTGAATTGTGATAACACTCGACAAGGAAGTGTCGAGGAGAGAGGAGGTAGGTACCGTGTTT
* * **
117103 TGACCGAACCTCTATAAATA-TCTGTGTCGAGTTTTCTC-TTTTCCCTTCTCTCTTT-CTTTTCA
512 GGACCGAACCTCTATAAATATTC-GTGTCAAGCCTTCTCATTTT-CCTTCTCTCTTTAC-TTTCA
* * * * *
117165 AGTTGTTTTTGAAACAA-TTCTTGCAAAATATTCAAATTTTGAAAAGAACCAATTCACCCCCTTC
574 AGTTGTTTTCGAAACAATTTCTT-CAAAACATTCAAATTTCGAAAAAAACAAATTCACCCCC-TC
** *
117229 TTGGTTTGTCCATTCCTAGAGCTTA
637 TTGGTTCATCCATTCCTAAAGCTTA
117254 TAGTTGGTAT
Statistics
Matches: 580, Mismatches: 67, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
686 12 0.02
687 162 0.28
688 225 0.39
689 100 0.17
690 78 0.13
691 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (688 bp):
AATGCATGAAAACAAGCACCAAACAAGTCAACAACGGCTAGAAACACAATCATTCAATCTCCAAC
AAGTATGTCAACATTCAAGACTATAAATTTGAGTTTCCAACAGCTAAATATCAAGAGAAACCATC
AAGAAACACCAAGAGATCAAAGCATACAAAGTTTTACTTACTTTCTCATTTTCAAGAGCTTTTAC
ATCATTATTGTTATTCTTTGAAAGCTCTTTGTTTTTAATTTGTGCTTATTCTCTCACAAACACCA
GCCTACTTAGAAGCAATTTTCATTTGTACAATTTCCTTGAATTGTGTAAAGTTGCATTCAACCTT
GGGTTACAATCTCTCAAGAATTTGGGGTATAATTCTTGAAGAGATTGTGAGGTTCTTATCTTAGC
CTTGAAAAGATAAAGCGTTGTAAGGTTATACCTTTCCTAAAAGATAAAACAATTCATGTAGTGAA
TTGTGATAACACTCGACAAGGAAGTGTCGAGGAGAGAGGAGGTAGGTACCGTGTTTGGACCGAAC
CTCTATAAATATTCGTGTCAAGCCTTCTCATTTTCCTTCTCTCTTTACTTTCAAGTTGTTTTCGA
AACAATTTCTTCAAAACATTCAAATTTCGAAAAAAACAAATTCACCCCCTCTTGGTTCATCCATT
CCTAAAGCTTACAAAGAGTATCGATACATAGTAACAGG
Found at i:118135 original size:24 final size:24
Alignment explanation
Indices: 118103--118148 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
118093 ACCGTCAAAG
118103 ATGATGAAGATGA-TAATGATGATA
1 ATGATGAAGATGACTAA-GATGATA
*
118127 ATGATGAAGTTGACTAAGATGA
1 ATGATGAAGATGACTAAGATGA
118149 AGAAATGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.43, C:0.02, G:0.26, T:0.28
Consensus pattern (24 bp):
ATGATGAAGATGACTAAGATGATA
Found at i:121942 original size:52 final size:52
Alignment explanation
Indices: 121864--121991 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
121854 CGAAATATGA
*
121864 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
*
121916 AAATTTGCTTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
121968 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
121992 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 20 0.28
52 47 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:122102 original size:33 final size:33
Alignment explanation
Indices: 122065--122131 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
122055 AGTAGCTTAA
122065 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
122098 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
122131 A
1 A
122132 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:122105 original size:13 final size:13
Alignment explanation
Indices: 122087--122111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122077 CAAAAAAATA
122087 TGTATCGATACAT
1 TGTATCGATACAT
122100 TGTATCGATACA
1 TGTATCGATACA
122112 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:123186 original size:49 final size:49
Alignment explanation
Indices: 122977--123631 Score: 886
Period size: 49 Copynumber: 13.7 Consensus size: 49
122967 AAAAGGATGT
*
122977 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
123029 CGATATGCTGATTCAAGGCCAGCTATATTGGACCT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
123072 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
123120 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
123169 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTTAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
123217 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
123266 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
123315 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
123363 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
123412 CAATATGCTGATTCAAGGCCAG-TGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGC
*
123455 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
123504 CAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
123547 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
123596 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
123632 GAAGGGTTGC
Statistics
Matches: 533, Mismatches: 47, Indels: 49
0.85 0.07 0.08
Matches are distributed among these distances:
43 113 0.21
44 1 0.00
45 2 0.00
47 2 0.00
48 137 0.26
49 248 0.47
52 30 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:123201 original size:97 final size:93
Alignment explanation
Indices: 122967--123636 Score: 947
Period size: 97 Copynumber: 7.1 Consensus size: 93
122957 AAGATGATGA
* * * *
122967 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGA
1 AAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAA
*
123032 TATGCTGATTCAAGGCCAGCTATATTGGACCT
62 TATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
123064 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
*
123127 CTGATTCAAGGCCAGCTACATTGGACTT
66 CTGATTCAAGGCCAGCTATATTGGACTT
* * *
123155 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTTAAGATG-AGGTGCCA
1 --A-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
* *
123219 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
123252 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
1 --A-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
*
123317 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
61 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
123350 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAA
1 AAA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAA
123415 TATGCTGATTCAAGGCCAG-TGATATTGGACTT
62 TATGCTGATTCAAGGCCAGCT-ATATTGGACTT
123447 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
*
123511 CTGATTCAAGGCCAGCAATATTGGACTT
66 CTGATTCAAGGCCAGCTATATTGGACTT
123539 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
*
123603 CTGATTCAAGGCCAGCTATATTGGGCTT
66 CTGATTCAAGGCCAGCTATATTGGACTT
*
123631 AGAAGG
1 AAAAGG
123637 GTTGCCACCG
Statistics
Matches: 536, Mismatches: 23, Indels: 32
0.91 0.04 0.05
Matches are distributed among these distances:
91 37 0.07
92 178 0.33
93 5 0.01
94 1 0.00
95 43 0.08
96 8 0.01
97 228 0.43
98 36 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (93 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACTT
Found at i:123710 original size:34 final size:33
Alignment explanation
Indices: 123672--124522 Score: 764
Period size: 34 Copynumber: 25.3 Consensus size: 33
123662 AGGAAGGGAG
* *
123672 AAAGATGCCACAGAGTTGTGGAC-TTAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAA--GAA
123706 AAAGAGTGCCACGGAGTTGTGGGCTTT--AA-AA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGAA
* *
123737 AGAG-TGCCACGGAGTCGTGGGCTTTGAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAAAGAA
* * *
123770 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAAAGAA
* ** *
123804 GAATG-TGCCATTGAGCTGTGGGCTTTAAAAAGAA
1 -AAAGATGCCACGGAGTTGTGGGCTTT-AAAAGAA
* *
123838 GAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT--AAA-AGAA
123874 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAA-AGAA
*
123909 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAAA--GAA
*
123945 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGAA
*
123979 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAAAGAA
* *
124013 GAAGGTGCCACGGAGTTGTGGGCTTT-AAAG--
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAAGAA
*
124043 --AG-TGCCACGGAGTCGTGGGCTTTGAAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT---AAAAGAA
*
124076 AAAGAGTGCCACGGAGTTATGGGCTTTAAACAGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAA-AGAA
* *
124111 AAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAAA--GAA
*
124147 AAAGAGTGCCACAGAGTTGTGGGCTTT-AAAG--
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGAA
* *
124178 --AG-TGCCATGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT--AAA-AGAA
*
124211 AAAGATTGCCACGGAGTTGTGGGCTTTAAAAAGAG
1 AAAGA-TGCCACGGAGTTGTGGGCTTT-AAAAGAA
* * *
124246 GAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAG
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAAGAA
* * * * *
124278 AAGGATGCCACTGCGTCGTGGACTTT-AAAG--
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAAGAA
* *
124308 --AG-TGCCACGGGGTCGTGGGCTTTGAAAAGAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT--AAA-AGAA
124341 AAAGAGTGCCACGGAGTTGTGGGCTTTAAATAGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAA-AGAA
*
124376 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTT-AAAA--GAA
*
124412 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTTAAAAGAA
*
124446 AAAGGTGCCACGGAGTTGTGGGCTTTTAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGC-TTTAAAAGAA
* * *
124480 GAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAG
1 AAAGATGCCACGGAGTTGTGGGCTTTAAAAGAA
*
124512 AAGGATGCCAC
1 AAAGATGCCAC
124523 TGCGTCGTGG
Statistics
Matches: 693, Mismatches: 67, Indels: 116
0.79 0.08 0.13
Matches are distributed among these distances:
27 56 0.08
28 3 0.00
29 22 0.03
30 4 0.01
31 13 0.02
32 48 0.07
33 47 0.07
34 243 0.35
35 76 0.11
36 42 0.06
37 139 0.20
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
AAAGATGCCACGGAGTTGTGGGCTTTAAAAGAA
Found at i:123902 original size:71 final size:71
Alignment explanation
Indices: 123733--124514 Score: 936
Period size: 71 Copynumber: 11.5 Consensus size: 71
123723 TGTGGGCTTT
* * *
123733 AAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTG-
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
123797 AAA-AG
66 AAAGAG
* * ** *
123802 AAGAA-TGTGCCATTGAGCTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
123866 AAAGAG
66 AAAGAG
* *
123872 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
*
123937 AAAGGG
66 AAAGAG
* *
123943 AAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-A
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
124006 AAA-AG
66 AAAGAG
* *
124011 AAGAAG-GTGCCACGGAGTTGTGGGCTTT----A-AAG-A-GTGCCACGGAGTCGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
*
124068 AAAAAG
66 AAAGAG
* * * *
124074 AAAAAGAGTGCCACGGAGTTATGGGCTTTAAACAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
*
124139 AAAGGG
66 AAAGAG
* * *
124145 AAAAAGAGTGCCACAGAGTTGTGGGCTTT----A-AAG-A-GTGCCATGGAGTCGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
124203 AAAGAG
66 AAAGAG
* *
124209 AAAAAGATTGCCACGGAGTTGTGGGCTTTAAAAAGAGGAAGGTGCCACGGAGTTGTGGGCTTT--
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
124272 AAAGAG
66 AAAGAG
* * * * * * *
124278 --AAGGA-TGCCACTGCGTCGTGGACTTT----A-AAG-A-GTGCCACGGGGTCGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
124333 AAAGAG
66 AAAGAG
* *
124339 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAATAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
*
124404 AAAGGG
66 AAAGAG
* * *
124410 AAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-T
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
124473 AAA-AG
66 AAAGAG
* *
124478 AAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAGAGAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAG
124515 GATGCCACTG
Statistics
Matches: 613, Mismatches: 67, Indels: 67
0.82 0.09 0.09
Matches are distributed among these distances:
59 20 0.03
60 1 0.00
61 29 0.05
62 6 0.01
63 13 0.02
64 92 0.15
65 1 0.00
66 19 0.03
67 47 0.08
68 72 0.12
69 26 0.04
70 73 0.12
71 214 0.35
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (71 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
AAAGAG
Found at i:124089 original size:37 final size:35
Alignment explanation
Indices: 124039--124513 Score: 460
Period size: 37 Copynumber: 14.0 Consensus size: 35
124029 TGTGGGCTTT
*
124039 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT--AAAAAGAA
* *
124076 AAAGAGTGCCACGGAGTTATGGGCTTTAAACAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
124111 AAAG-GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
*
124147 AAAGAGTGCCACAGAGTTGTGGGCTTT--------
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
124174 AAAGAGTGCCATGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
* *
124211 AAAGATTGCCACGGAGTTGTGGGCTTTAAAAAGAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
124246 GAAG-GTGCCACGGAGTTGTGGGCTTT--AAAGAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * * * *
124278 AAGGA-TGCCACTGCGTCGTGGACTTT--------
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
124304 AAAGAGTGCCACGGGGTCGTGGGCTTTGAAAAGAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
*
124341 AAAGAGTGCCACGGAGTTGTGGGCTTTAAATAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
124376 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
*
124412 AAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
124446 AAAG-GTGCCACGGAGTTGTGGGCTTTTAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
124480 GAAG-GTGCCACGGAGTTGTGGGCTTTAAAGAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
124514 GGATGCCACT
Statistics
Matches: 372, Mismatches: 37, Indels: 61
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.01
27 42 0.11
32 25 0.07
33 21 0.06
34 108 0.29
35 34 0.09
36 21 0.06
37 117 0.31
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (35 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
Found at i:124118 original size:98 final size:94
Alignment explanation
Indices: 123945--124513 Score: 331
Period size: 98 Copynumber: 5.7 Consensus size: 94
123935 GAAAAGGGAA
* *
123945 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
1 AAAGAGTGCCACAGAGTCGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAAAA
* *
124010 GAAGAAGGTGCCACGGAGTTGTGGGCTTT
66 GAAAAAGGTGCCACAGAGTTGTGGGCTTT
*
124039 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAAAGAAAAAGAGTGCCACGGAGTTATGGGCTTTA
1 AAAGAGTGCCACAGAGTCGTGGGCTTT---AAAAGAAAAAG-GTGCCACGGAGTTATGGGCTTTA
*
124104 AACAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
62 AAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * **
124137 GAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAG----A-GTGCCATGGAGTCGTGG
1 ----------AAAGAGTGCCACAGAGTCGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTATGG
* *
124196 GCTTTGAAAAGAGAAAAAGATTGCCACGGAGTTGTGGGCTTT
56 GCTTT-AAAA-AGAAAAAG-GTGCCACAGAGTTGTGGGCTTT
* * * * * ** *
124238 AAAAAGAGGAAGGTGCCACGGAGTTGTGGGCTTT-AAAG-AGAAGGATGCCACTGCGTCGTGGAC
1 ---AA-A-G-A-GTGCCACAGAGTCGTGGGCTTTAAAAGAAAAAGG-TGCCACGGAGTTATGGGC
* * *
124301 TTT--AAAG----A-GTGCCACGGGGTCGTGGGCTTT
58 TTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
* * *
124331 GAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAATAGAAAAAGGTGCCACGGAGTTGTG
1 ----------AAAGAGTGCCACAGAGTCGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTATG
*
124396 GGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
55 GGCTTT-AAAA-AGAAAAAG-GTGCCACAGAGTTGTGGGCTTT
* * * *
124439 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
1 -AAAG----A-GTGCCACAGAGTCGTGGGC-TTTAAAAGAAAAAGGTGCCACGGAGTTATGGGCT
*
124504 TTAAAGAGAA
59 TTAAAAAGAA
124514 GGATGCCACT
Statistics
Matches: 387, Mismatches: 36, Indels: 96
0.75 0.07 0.18
Matches are distributed among these distances:
93 19 0.05
94 29 0.07
95 2 0.01
96 23 0.06
97 15 0.04
98 116 0.30
99 16 0.04
100 15 0.04
101 23 0.06
102 5 0.01
103 21 0.05
104 52 0.13
105 6 0.02
106 1 0.00
108 44 0.11
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (94 bp):
AAAGAGTGCCACAGAGTCGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAAAA
GAAAAAGGTGCCACAGAGTTGTGGGCTTT
Found at i:124177 original size:27 final size:27
Alignment explanation
Indices: 124147--124200 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
124137 GAAAAGGGAA
*
124147 AAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAGAGTGCCACAGAGTCGTGGGCTTT
**
124174 AAAGAGTGCCATGGAGTCGTGGGCTTT
1 AAAGAGTGCCACAGAGTCGTGGGCTTT
124201 GAAAAGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (27 bp):
AAAGAGTGCCACAGAGTCGTGGGCTTT
Found at i:124546 original size:34 final size:32
Alignment explanation
Indices: 124485--124599 Score: 112
Period size: 31 Copynumber: 3.7 Consensus size: 32
124475 AAGAAGAAGG
* * *
124485 TGCCACGGAGTTGTGGGCTTT-A-AAGAGAAGGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAA--A
* * *
124517 TGCCACTGCGTCGTGGACTTTGAGTAGAG-AT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAAA
*
124548 TGCCACTGAGTCGTGGACTTTGAGAAGAG-AT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAAA
*
124579 TGCCACTGAGTCATGGACTTT
1 TGCCACTGAGTCGTGGACTTT
124600 TTTTTTTTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
31 49 0.68
32 17 0.24
33 2 0.03
34 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAAA
Found at i:124552 original size:31 final size:31
Alignment explanation
Indices: 124509--124599 Score: 141
Period size: 31 Copynumber: 3.0 Consensus size: 31
124499 GGGCTTTAAA
*
124509 GAGAAG-GA-TGCCACTGCGTCGTGGACTTT
1 GAGAAGAGATTGCCACTGAGTCGTGGACTTT
*
124538 GAGTAGAGATTGCCACTGAGTCGTGGACTTT
1 GAGAAGAGATTGCCACTGAGTCGTGGACTTT
*
124569 GAGAAGAGATTGCCACTGAGTCATGGACTTT
1 GAGAAGAGATTGCCACTGAGTCGTGGACTTT
124600 TTTTTTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
29 5 0.09
30 2 0.04
31 49 0.88
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (31 bp):
GAGAAGAGATTGCCACTGAGTCGTGGACTTT
Found at i:125599 original size:11 final size:11
Alignment explanation
Indices: 125585--125618 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
125575 GGTTTTTCCC
125585 TTTTTTTTGTT-
1 TTTTTTTT-TTG
125596 TTTTTTTTTTG
1 TTTTTTTTTTG
125607 TTTTTTTTTTG
1 TTTTTTTTTTG
125618 T
1 T
125619 GAAGATTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 2 0.09
11 20 0.91
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:125603 original size:13 final size:13
Alignment explanation
Indices: 125585--125616 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
125575 GGTTTTTCCC
125585 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
125598 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
125611 TTTTTT
1 TTTTTT
125617 GTGAAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (13 bp):
TTTTTTTTGTTTT
Found at i:132943 original size:52 final size:52
Alignment explanation
Indices: 132865--132992 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
132855 CGAAATATGA
*
132865 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
*
132917 AAATTTGCTTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
132969 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
132993 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 20 0.28
52 47 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:133103 original size:33 final size:33
Alignment explanation
Indices: 133066--133132 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
133056 AGTAGCTTAA
133066 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
133099 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
133132 A
1 A
133133 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:133106 original size:13 final size:13
Alignment explanation
Indices: 133088--133112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
133078 CAAAAAAATA
133088 TGTATCGATACAT
1 TGTATCGATACAT
133101 TGTATCGATACA
1 TGTATCGATACA
133113 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:139273 original size:21 final size:21
Alignment explanation
Indices: 139243--139285 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
139233 AAATACAAAA
*
139243 GGGGAGAAAATCATTTTAAAC
1 GGGGAAAAAATCATTTTAAAC
139264 GGGGAAAAAATCATTTTAAAC
1 GGGGAAAAAATCATTTTAAAC
139285 G
1 G
139286 AGTGCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (21 bp):
GGGGAAAAAATCATTTTAAAC
Found at i:140066 original size:13 final size:13
Alignment explanation
Indices: 140045--140074 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
140035 TGATACATGG
*
140045 TACATTGTATCGA
1 TACAATGTATCGA
140058 TACAATGTATCGA
1 TACAATGTATCGA
140071 TACA
1 TACA
140075 TTATGCCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:141597 original size:3 final size:3
Alignment explanation
Indices: 141578--141626 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
141568 CAATCCATCA
* * *
141578 ATG ATT ATG AAG ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
141626 A
1 A
141627 AGTTGACTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:148201 original size:22 final size:21
Alignment explanation
Indices: 148171--148217 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
148161 TGGCTTTGAT
*
148171 ATAACAAAG-TATGAATAAACTC
1 ATAAAAAAGATATGAA-AAAC-C
*
148193 ATAAAAAAGATTTGAAAAACC
1 ATAAAAAAGATATGAAAAACC
148214 ATAA
1 ATAA
148218 TAAGTTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 12 0.55
23 5 0.23
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.21
Consensus pattern (21 bp):
ATAAAAAAGATATGAAAAACC
Found at i:154740 original size:32 final size:32
Alignment explanation
Indices: 154704--154798 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 32
154694 ACCGATTTTG
154704 CCCTAGTCAACTTTTTTTTTACTTAGGTTCCA
1 CCCTAGTCAACTTTTTTTTTACTTAGGTTCCA
* * *
154736 CCCTAGTTAACTTTAGTTAACTTTA-TT-GGTTTCA
1 CCCTAGTCAACTTT--TT--TTTTACTTAGGTTCCA
* *
154770 CCTTAGTCAACTTCTTTTTTACTTAGGTT
1 CCCTAGTCAACTTTTTTTTTACTTAGGTT
154799 TTGCCCAGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
30 4 0.08
31 2 0.04
32 19 0.38
34 19 0.38
35 2 0.04
36 4 0.08
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (32 bp):
CCCTAGTCAACTTTTTTTTTACTTAGGTTCCA
Found at i:154788 original size:66 final size:66
Alignment explanation
Indices: 154707--155098 Score: 285
Period size: 66 Copynumber: 5.9 Consensus size: 66
154697 GATTTTGCCC
* * * * ***
154707 TAGTCAACTTTTTTTTTACTTAGGTTCCACCCTAGTTAACTTTAGTTAACTTTATTGGTTTCACC
1 TAGTCAACTTCTTTTTTACTTAGGTTTCACCCTAGTCAACTTTAGTTGACTTTATCAATTTCACC
154772 T
66 T
** * * *
154773 TAGTCAACTTCTTTTTTACTTAGGTTTTGCCC-AGGTTAACCTTAGTTGACTTTATCAATTTTAC
1 TAGTCAACTTCTTTTTTACTTAGGTTTCACCCTA-GTCAACTTTAGTTGACTTTATCAATTTCAC
154837 CT
65 CT
* * * * * * * ** * **
154839 TTGTTAACTCCGTTTTGACTTAGGTTCCACCCTGGTCATTTTTAGTTGACTTTATCGATTTTTCC
1 TAGTCAACTTCTTTTTTACTTAGGTTTCACCCTAGTCAACTTTAGTTGACTTTATCAATTTCACC
*
154904 C
66 T
** * * *
154905 TAGTCAA-TTCCTTTTCGACTTAGGTTTCACCTTCA-TCAACTTTCGTTGACTTTATCAATTTCG
1 TAGTCAACTT-CTTTTTTACTTAGGTTTCACCCT-AGTCAACTTTAGTTGACTTTATCAATTTCA
*
154968 CCC
64 CCT
* ** * * * * **
154971 TAGTTAAC-TCATTTTTTACTTAGGTTTGGCCCTAGTCATCTTTAGTTAACTTTATTAGTTTGGC
1 TAGTCAACTTC-TTTTTTACTTAGGTTTCACCCTAGTCAACTTTAGTTGACTTTATCAATTTCAC
155035 CT
65 CT
* * *
155037 TAGTCAAC-TCTTTTTTCACTTAAGTTTCACCCT-GATC-ACATTGAGTTGACTTTATCGATTTC
1 TAGTCAACTTCTTTTTT-ACTTAGGTTTCACCCTAG-TCAAC-TTTAGTTGACTTTATCAATTTC
155099 GTCTTGGTTA
Statistics
Matches: 252, Mismatches: 64, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
65 12 0.05
66 240 0.95
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.46
Consensus pattern (66 bp):
TAGTCAACTTCTTTTTTACTTAGGTTTCACCCTAGTCAACTTTAGTTGACTTTATCAATTTCACC
T
Found at i:154799 original size:32 final size:31
Alignment explanation
Indices: 154704--154799 Score: 93
Period size: 34 Copynumber: 2.9 Consensus size: 31
154694 ACCGATTTTG
*
154704 CCCTAGTCAACTTTTTTTTTACTTAGGTTCCA
1 CCCTAGTCAAC-TTTTTTTTACTTAGGTTTCA
* ** *
154736 CCCTAGTTAACTTTAGTTAACTTTATTGGTTTCA
1 CCCTAGTCAACTTTTTTTTAC-TTA--GGTTTCA
*
154770 CCTTAGTCAACTTCTTTTTTACTTAGGTTT
1 CCCTAGTCAACTT-TTTTTTACTTAGGTTT
154800 TGCCCAGGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
31 7 0.14
32 18 0.36
34 20 0.40
35 5 0.10
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.49
Consensus pattern (31 bp):
CCCTAGTCAACTTTTTTTTACTTAGGTTTCA
Found at i:154911 original size:198 final size:198
Alignment explanation
Indices: 154691--155097 Score: 426
Period size: 198 Copynumber: 2.1 Consensus size: 198
154681 TAACTAGATG
* * ** *
154691 TTTACCGATTTTGCCCTAGTCAACTT-TTTTTTTACTTAGGTTCCACCCT-AGTTAACTTTAGTT
1 TTTATCGATTTTGCCCTAGTCAA-TTCCTTTTCGACTTAGGTTCCACCCTCA-TCAACTTTAGTT
*** * * *
154754 AACTTTATTGGTTTCACCTTAGTCAACTTC-TTTTTTACTTAGGTTTTGCCC-AGGTTAACCTTA
64 AACTTTATCAATTTCACCCTAGTCAAC-TCATTTTTTACTTAGGTTTGGCCCTA-GTCAACCTTA
* * * * * * * ** *
154817 GTTGACTTTATCAATTTTACCTTTGTTAACTCCGTTTTGACTTAGGTTCCACCCTGGTCATTTTT
127 GTTAACTTTATCAATTTGACCTTAGTCAACTCCGTTTTCACTTAAGTTCCACCCTGATCACATTG
154882 AGTTGAC
192 AGTTGAC
* * * * *
154889 TTTATCGATTTTTCCCTAGTCAATTCCTTTTCGACTTAGGTTTCACCTTCATCAACTTTCGTTGA
1 TTTATCGATTTTGCCCTAGTCAATTCCTTTTCGACTTAGGTTCCACCCTCATCAACTTTAGTTAA
* * * *
154954 CTTTATCAATTTCGCCCTAGTTAACTCATTTTTTACTTAGGTTTGGCCCTAGTCATCTTTAGTTA
66 CTTTATCAATTTCACCCTAGTCAACTCATTTTTTACTTAGGTTTGGCCCTAGTCAACCTTAGTTA
* * * ** *
155019 ACTTTATTAGTTTGGCCTTAGTCAACTCTTTTTTCACTTAAGTTTCACCCTGATCACATTGAGTT
131 ACTTTATCAATTTGACCTTAGTCAACTCCGTTTTCACTTAAGTTCCACCCTGATCACATTGAGTT
155084 GAC
196 GAC
155087 TTTATCGATTT
1 TTTATCGATTT
155098 CGTCTTGGTT
Statistics
Matches: 169, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
197 4 0.02
198 163 0.96
199 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.46
Consensus pattern (198 bp):
TTTATCGATTTTGCCCTAGTCAATTCCTTTTCGACTTAGGTTCCACCCTCATCAACTTTAGTTAA
CTTTATCAATTTCACCCTAGTCAACTCATTTTTTACTTAGGTTTGGCCCTAGTCAACCTTAGTTA
ACTTTATCAATTTGACCTTAGTCAACTCCGTTTTCACTTAAGTTCCACCCTGATCACATTGAGTT
GAC
Found at i:155109 original size:132 final size:131
Alignment explanation
Indices: 154718--155110 Score: 371
Period size: 132 Copynumber: 3.0 Consensus size: 131
154708 AGTCAACTTT
* * *
154718 TTTTTTACTTAGGTTCCACCCTAGTTAACTTTAGTTAACTTTATTGGTTTCACCTTAGTCAACTT
1 TTTTTTACTTAGGTTCCACCCTAGTCATCTTTAGTTAACTTTATTAGTTTCACCTTAGTCAAC-T
** * * * * ** *
154783 CTTTTTT-ACTTAGGTTTTGCCCAGGTTAACCTTAGTTGACTTTATCAATTTTACCTTTGTTAAC
65 CTTTTTTCACTTAGGTTTCACCC-TGATCACATTAGTTGACTTTATCAATTTCGCCTTAGTTAAC
*
154847 TCC
129 TCA
* * * * * * * *
154850 GTTTTGACTTAGGTTCCACCCTGGTCATTTTTAGTTGACTTTATCGATTTTTC-CC-TAGTCAAT
1 TTTTTTACTTAGGTTCCACCCTAGTCATCTTTAGTTAACTTTAT-TA-GTTTCACCTTAGTCAAC
* * * * * *
154913 TC-CTTTTCGACTTAGGTTTCACCTTCATCAACTTTCGTTGACTTTATCAATTTCGCCCTAGTTA
64 TCTTTTTTC-ACTTAGGTTTCACCCTGATC-ACATTAGTTGACTTTATCAATTTCGCCTTAGTTA
154977 ACTCA
127 ACTCA
*** **
154982 TTTTTTACTTAGGTTTGGCCCTAGTCATCTTTAGTTAACTTTATTAGTTTGGCCTTAGTCAACTC
1 TTTTTTACTTAGGTTCCACCCTAGTCATCTTTAGTTAACTTTATTAGTTTCACCTTAGTCAACTC
* * * *
155047 TTTTTTCACTTAAGTTTCACCCTGATCACATTGAGTTGACTTTATCGATTTCGTCTTGGTTAAC
66 TTTTTTCACTTAGGTTTCACCCTGATCACATT-AGTTGACTTTATCAATTTCGCCTTAGTTAAC
155111 CCTTTAACTA
Statistics
Matches: 204, Mismatches: 48, Indels: 18
0.76 0.18 0.07
Matches are distributed among these distances:
130 7 0.03
131 10 0.05
132 176 0.86
133 7 0.03
134 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (131 bp):
TTTTTTACTTAGGTTCCACCCTAGTCATCTTTAGTTAACTTTATTAGTTTCACCTTAGTCAACTC
TTTTTTCACTTAGGTTTCACCCTGATCACATTAGTTGACTTTATCAATTTCGCCTTAGTTAACTC
A
Found at i:155253 original size:108 final size:108
Alignment explanation
Indices: 155020--155318 Score: 302
Period size: 108 Copynumber: 2.8 Consensus size: 108
155010 CTTTAGTTAA
** * * * * * *
155020 CTTTATTAGTTTGGCCTTAGTCAACT-CTTTTTTCACTTAAGTTTCACCCT-GATCACATTGAGT
1 CTTTATT-GTTTCACCTTAGTCAACTCCTTTTTTGACTTAGGTTTCGCCCTAGTTAAC-TTTAGT
* * * ** * *
155083 TGACTTTATCGATTTCGTCTTGGTTAACCCTT-TAACTAGTTGAT
64 TGACTTTATCAATTTTGCCTTAATCAACCTTTCTAACTAGTTGAT
* * * *
155127 TTTTTTTGTTTCACCTTAGTCAAC-CTTCTTTTTGACTTAGGTTTCGCCCTAGTTACCTTTAGTT
1 CTTTATTGTTTCACCTTAGTCAACTCCT-TTTTTGACTTAGGTTTCGCCCTAGTTAACTTTAGTT
*
155191 GACTTTATCAGTTTTGCCTTAATCAACCTTTCTAACTAGTTGA-
65 GACTTTATCAATTTTGCCTTAATCAACCTTTCTAACTAGTTGAT
* *** *
155234 CTTTATTGCTTTCAGCTTAGTCAACTCCTTTTTTGACTTAGGTTTCGTTTTGGTTAACTTTAGTT
1 CTTTATTG-TTTCACCTTAGTCAACTCCTTTTTTGACTTAGGTTTCGCCCTAGTTAACTTTAGTT
155299 GACTTTATCAATTTTGCCTT
65 GACTTTATCAATTTTGCCTT
155319 GGTATTTTTC
Statistics
Matches: 156, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
106 16 0.10
107 59 0.38
108 79 0.51
109 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (108 bp):
CTTTATTGTTTCACCTTAGTCAACTCCTTTTTTGACTTAGGTTTCGCCCTAGTTAACTTTAGTTG
ACTTTATCAATTTTGCCTTAATCAACCTTTCTAACTAGTTGAT
Found at i:156396 original size:261 final size:261
Alignment explanation
Indices: 155929--156459 Score: 884
Period size: 261 Copynumber: 2.0 Consensus size: 261
155919 AAAGGGCAGT
* **
155929 TGTAGACACCTAATTTCATCTGAGCCCTTTTTCTAGTAGTCCTAAATATCCAAGAATACGGATCT
1 TGTAGACACCTAATTTCATCTGAGCCCTTTTTCTAGTAGTCCAAAATATCCAAGAATACAAATCT
* *
155994 AGCGGCCATCGTGATAGAGGTCGACTTTTGCAAAGTGGACTTGGCATTTTTATAACTTAGTTAGT
66 AGCGGCCATCATGATAGAGGTCGACTTTTGCAAAGTGGA--T-ACATTTTTATAACTTAGTTAGT
* *
156059 CATGCCTAAATTGTCGCACATGCACATAATAGAAAAAGTACAGTTTTAAGGCAAATTTCAAATAA
128 CATGCCTAAATTGTCGCACATGCACATAATAGAAAAAGTACAATTTTAAGGCAAATCTCAAATAA
156124 AAAAGATAAATATTCAATAGAAAAATAGGTTTTTAAGCATTTCCATGCCAAATTTTGGAAATCCA
193 AAAAGATAAATATTCAATAGAAAAATAGGTTTTTAAGCATTTCCATGCCAAATTTTGGAAATCCA
156189 TTCC
258 TTCC
156193 TGTAGACACCTAATTTCATCTGAGCCCTTTTTTCTAGTAGTCCAAAATATCCAAGAATACAAATC
1 TGTAGACACCTAATTTCATCTGAGCCC-TTTTTCTAGTAGTCCAAAATATCCAAGAATACAAATC
*
156258 TAGTGGCCATCATGATAGAGGTCGACTTTTGCAAAGTGGA-ACATTTTTATAACTTAGTTAGTCA
65 TAGCGGCCATCATGATAGAGGTCGACTTTTGCAAAGTGGATACATTTTTATAACTTAGTTAGTCA
* * * *
156322 TGCCTAAATTGTTGCACATGCACGTAATAGAAAAAGTACAATTTTGAGGCAAATCTCAGATAAAA
130 TGCCTAAATTGTCGCACATGCACATAATAGAAAAAGTACAATTTTAAGGCAAATCTCAAATAAAA
* *
156387 AAGATAAATATTCAATAGAAAAATTGGTTTTTAAGCATTTCCATGCCAGATTTTGGAAATCCATT
195 AAGATAAATATTCAATAGAAAAATAGGTTTTTAAGCATTTCCATGCCAAATTTTGGAAATCCATT
*
156452 TC
260 CC
156454 TGTAGA
1 TGTAGA
156460 TGATATGACG
Statistics
Matches: 251, Mismatches: 15, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
261 152 0.61
264 27 0.11
265 72 0.29
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (261 bp):
TGTAGACACCTAATTTCATCTGAGCCCTTTTTCTAGTAGTCCAAAATATCCAAGAATACAAATCT
AGCGGCCATCATGATAGAGGTCGACTTTTGCAAAGTGGATACATTTTTATAACTTAGTTAGTCAT
GCCTAAATTGTCGCACATGCACATAATAGAAAAAGTACAATTTTAAGGCAAATCTCAAATAAAAA
AGATAAATATTCAATAGAAAAATAGGTTTTTAAGCATTTCCATGCCAAATTTTGGAAATCCATTC
C
Found at i:157233 original size:6 final size:6
Alignment explanation
Indices: 157224--157272 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
157214 TTTATGATTA
*
157224 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TT-CTT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT
157271 TT
1 TT
157273 GGATTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 4 0.10
6 36 0.90
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:157893 original size:20 final size:21
Alignment explanation
Indices: 157863--157902 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
157853 AAATATATTA
157863 TTTGTTGATATGATGTTGATC
1 TTTGTTGATATGATGTTGATC
*
157884 TTTG-TGATATGATTTTGAT
1 TTTGTTGATATGATGTTGAT
157903 TTTTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.55
Consensus pattern (21 bp):
TTTGTTGATATGATGTTGATC
Found at i:158490 original size:28 final size:29
Alignment explanation
Indices: 158459--158515 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
158449 ATTTTAGATT
* * *
158459 GTTTGAGACTTTTTTAT-AATTTTAAAAA
1 GTTTAAGACTTATTTATAAATATTAAAAA
*
158487 GTTTAAGGCTTATTTATAAATATTAAAAA
1 GTTTAAGACTTATTTATAAATATTAAAAA
158516 AAATTGTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.46
Consensus pattern (29 bp):
GTTTAAGACTTATTTATAAATATTAAAAA
Found at i:159334 original size:107 final size:109
Alignment explanation
Indices: 159128--159335 Score: 296
Period size: 109 Copynumber: 1.9 Consensus size: 109
159118 CCCTAAGGAA
* * *
159128 ATTTTGGTAATTCCTTTAGAACCGAGTCTTAAGTAGTCACCAGAATGCTTTTATGCTAAACGTGT
1 ATTTTGGCAATTCCTTTAGAACCGAGTCTTAAGTAGTCACCAGAATGCTTTTATGCCAAACGTGC
159193 GCATTTAAAATAGGTTCATCCTTTTATGATCATTTTCGTGTCGC
66 GCATTTAAAATAGGTTCATCCTTTTATGATCATTTTCGTGTCGC
* * * *
159237 ATTTTGGCAATTTCC-TTAGAATCGAGTCTTAAGTAGTCACTAGGAT-TTTTTATGCCAAA-GTG
1 ATTTTGGCAA-TTCCTTTAGAACCGAGTCTTAAGTAGTCACCAGAATGCTTTTATGCCAAACGTG
* * *
159299 CGTATTTAAGATAGGTTTATCCTTTTATGATCATTTT
65 CGCATTTAAAATAGGTTCATCCTTTTATGATCATTTT
159336 GATATCTTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 36 0.41
108 11 0.12
109 37 0.42
110 4 0.05
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (109 bp):
ATTTTGGCAATTCCTTTAGAACCGAGTCTTAAGTAGTCACCAGAATGCTTTTATGCCAAACGTGC
GCATTTAAAATAGGTTCATCCTTTTATGATCATTTTCGTGTCGC
Found at i:159440 original size:262 final size:262
Alignment explanation
Indices: 158974--159492 Score: 584
Period size: 262 Copynumber: 2.0 Consensus size: 262
158964 TACATAATGA
* * *
158974 CATTTTGGTAATTTCCCTAGAATCGAGTCCTAGGTAGTCATTGGCATGCTTTATGCCAAAGGTGC
1 CATTTTGGCAATTTCCCTAGAATCGAGTCCTAAGTAGTCATAGGCATGCTTTATGCCAAAGGTGC
* * * * * *
159039 GTATTTAGGATAGGTTCATCTTTTTATGATCATTTCGTGTCATTTAGGATTGCTAGGATACTTTC
66 GTATTTAAGATAGGTTCATCCTTTTATGATCATTTCGTATCATTTAGGATTACCAAGATACTTTC
* * * * * * * * *
159104 ACGTCGAAGGTTTACCCTAAGGAAATTTTGGTAATTCCTTTAGAACCGAGTCTTAAGTAGTCACC
131 ACCTCAAAAGTTGACCCAAAGGAAATTTTGCTAATTCCTATAGAACCGAGTCTCAAATAGTCACC
* * *
159169 AGAATGCTTTTATGCTAAACGTGTGCATTTAAAATAGGTTCATCCTTTTATGATCATTTTCGTGT
196 AGAATGCTTTTATGCCAAACGTATGCATTTAAAATAGGTTCATCCTTCTATGATCATTTTCGTGT
159234 CG
261 CG
* * **
159236 CATTTTGGCAATTTCCTTAGAATCGAGTCTTAAGTAGTCACTAGG-ATTTTTTATGCCAAA-GTG
1 CATTTTGGCAATTTCCCTAGAATCGAGTCCTAAGTAGTCA-TAGGCATGCTTTATGCCAAAGGTG
* * * *
159299 CGTATTTAAGATAGGTTTATCCTTTTATGATCATTTTGATATCTTTTAGGGTTACCAAGATACTT
65 CGTATTTAAGATAGGTTCATCCTTTTATGATCATTTCG-TATCATTTAGGATTACCAAGATACTT
* * * *
159364 TCACCTCAAAAGTATGCCCCAAAGG-CATTTTGCTAACTTTCCTAT-G-GCTGAGTC-CAATATA
129 TCACCTCAAAAGT-TGACCCAAAGGAAATTTTGCTAA--TTCCTATAGAACCGAGTCTCAA-ATA
* * ** *
159425 GTCACCTAG-ATGCTTTTATGCCAAATGTATGTATTTAGGATAGGTTCATCCTTCTATGATTATT
190 GTCACC-AGAATGCTTTTATGCCAAACGTATGCATTTAAAATAGGTTCATCCTTCTATGATCATT
159489 TTCG
254 TTCG
159493 AGTCTTTTAG
Statistics
Matches: 212, Mismatches: 38, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
261 39 0.18
262 153 0.72
263 14 0.07
264 6 0.03
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (262 bp):
CATTTTGGCAATTTCCCTAGAATCGAGTCCTAAGTAGTCATAGGCATGCTTTATGCCAAAGGTGC
GTATTTAAGATAGGTTCATCCTTTTATGATCATTTCGTATCATTTAGGATTACCAAGATACTTTC
ACCTCAAAAGTTGACCCAAAGGAAATTTTGCTAATTCCTATAGAACCGAGTCTCAAATAGTCACC
AGAATGCTTTTATGCCAAACGTATGCATTTAAAATAGGTTCATCCTTCTATGATCATTTTCGTGT
CG
Found at i:160067 original size:22 final size:22
Alignment explanation
Indices: 160042--160098 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
160032 GACAAGTTCA
160042 AATGTTTTTCAAGCAAAAAAAC
1 AATGTTTTTCAAGCAAAAAAAC
160064 AATGTTTTTCAAGCAAAAAAAC
1 AATGTTTTTCAAGCAAAAAAAC
160086 AATGTTTTTCAAG
1 AATGTTTTTCAAG
160099 TAAATATACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.32
Consensus pattern (22 bp):
AATGTTTTTCAAGCAAAAAAAC
Found at i:160262 original size:33 final size:33
Alignment explanation
Indices: 160204--160268 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
160194 CACACCTAGA
*
160204 TGTATCAATACAAATTACTAAGTATCGATACAT
1 TGTATCAATACAAATTACTAAGTATCAATACAT
* * **
160237 TGTATCGATACAAATTGCTTTGTATCAATACA
1 TGTATCAATACAAATTACTAAGTATCAATACA
160269 CTATGGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (33 bp):
TGTATCAATACAAATTACTAAGTATCAATACAT
Found at i:165747 original size:20 final size:20
Alignment explanation
Indices: 165684--165875 Score: 156
Period size: 20 Copynumber: 9.6 Consensus size: 20
165674 TAACTAGATT
165684 TATCGATACATTGACAA-AATG
1 TATCGATACATTGA-AACAA-G
***
165705 TATCGATACATT-TTTCAATG
1 TATCGATACATTGAAACAA-G
* *
165725 TATCGATACATTCATACAAG
1 TATCGATACATTGAAACAAG
* * *
165745 TATCAATACATTGAAAGATG
1 TATCGATACATTGAAACAAG
* *
165765 TATCGATACATTGAAAGATG
1 TATCGATACATTGAAACAAG
* * *
165785 TATCGATACATTGGAAGATG
1 TATCGATACATTGAAACAAG
* * *
165805 TATCGATACATTGGAAGATG
1 TATCGATACATTGAAACAAG
* * *
165825 TATCGATACATTGGAAGATG
1 TATCGATACATTGAAACAAG
165845 TATCGATACATTGAAA-AATG
1 TATCGATACATTGAAACAA-G
165865 TATCGATACAT
1 TATCGATACAT
165876 CTAGGTAAAA
Statistics
Matches: 154, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.01
20 137 0.89
21 16 0.10
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
TATCGATACATTGAAACAAG
Found at i:165766 original size:40 final size:39
Alignment explanation
Indices: 165679--165875 Score: 225
Period size: 40 Copynumber: 4.9 Consensus size: 39
165669 AAATTTAACT
* * ***
165679 AGATTTATCGATACATTGACAAAATGTATCGATACATTTTTC
1 AGATGTATCGATACATTG--AAGATGTATCGATACA-TTGGA
* * * * *
165721 A-ATGTATCGATACATTCATACAAGTATCAATACATTGAA
1 AGATGTATCGATACATTGA-AGATGTATCGATACATTGGA
165760 AGATGTATCGATACATTGAAAGATGTATCGATACATTGGA
1 AGATGTATCGATACATTG-AAGATGTATCGATACATTGGA
165800 AGATGTATCGATACATTGGAAGATGTATCGATACATTGGA
1 AGATGTATCGATACATT-GAAGATGTATCGATACATTGGA
*
165840 AGATGTATCGATACATTGAAAAATGTATCGATACAT
1 AGATGTATCGATACATTG-AAGATGTATCGATACAT
165876 CTAGGTAAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
39 5 0.04
40 114 0.84
41 16 0.12
42 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (39 bp):
AGATGTATCGATACATTGAAGATGTATCGATACATTGGA
Done.