Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 17 of 253
Found at i:4782002 original size:47 final size:46
Alignment explanation
Indices: 4781790--4781999 Score: 203
Period size: 47 Copynumber: 4.6 Consensus size: 46
4781780 TTCACATAAT
* ** * **
4781790 GATGCCATAGCCCAGCTATGGTCTTACAC--AT-ATTTAT-ATATT
1 GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACC
* *
4781832 GATGCCATAGCCCAGTTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--ACC
* * * *
4781881 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACC
* * * *
4781927 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACC
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACACC
*
4781974 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
4782000 TACGGAAATC
Statistics
Matches: 142, Mismatches: 18, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
42 28 0.20
45 2 0.01
46 31 0.22
47 39 0.27
48 11 0.08
49 31 0.22
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (46 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACC
Found at i:4782020 original size:7 final size:7
Alignment explanation
Indices: 4782008--4782036 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
4781998 TATACGGAAA
4782008 TCACTTG
1 TCACTTG
4782015 TCACTTG
1 TCACTTG
4782022 TCACTTG
1 TCACTTG
4782029 TCACTTG
1 TCACTTG
4782036 T
1 T
4782037 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:4782070 original size:31 final size:31
Alignment explanation
Indices: 4782035--4782183 Score: 190
Period size: 31 Copynumber: 4.8 Consensus size: 31
4782025 CTTGTCACTT
* *
4782035 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
4782066 GTAGCCGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
4782097 GTAGCCGGAGCTGCCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
4782128 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
4782159 GTAGCTGAAGCTACCAGTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
4782184 TGTCATTTGC
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:4782263 original size:50 final size:51
Alignment explanation
Indices: 4782159--4782287 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
4782149 CACTGATCAG
* * * * *
4782159 GTAGCTGAAGCTACCAGTTTTCACTTGTCATTTGCCATTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAAATAAGT
4782210 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCC-TTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTG-CCATTGATCAAATAAGT
4782260 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
4782288 TGCCATAGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAAATAAGT
Found at i:4792396 original size:22 final size:22
Alignment explanation
Indices: 4792356--4792405 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4792346 TTATTAATAT
*
4792356 ATATTTTGAAATTACTTTTTTA
1 ATATTTTAAAATTACTTTTTTA
*
4792378 A-ATTTTAAATATTATTTTTTTA
1 ATATTTTAAA-ATTACTTTTTTA
4792400 ATATTT
1 ATATTT
4792406 AGATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 13 0.54
23 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
ATATTTTAAAATTACTTTTTTA
Found at i:4792411 original size:22 final size:22
Alignment explanation
Indices: 4792356--4792412 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
4792346 TTATTAATAT
* *
4792356 ATATTTTGAAATTACTTTTTTA
1 ATATTTAGATATTACTTTTTTA
* *
4792378 A-ATTTTAAATATTATTTTTTTA
1 ATA-TTTAGATATTACTTTTTTA
4792400 ATATTTAGATATT
1 ATATTTAGATATT
4792413 TTAAACTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
ATATTTAGATATTACTTTTTTA
Found at i:4793300 original size:22 final size:22
Alignment explanation
Indices: 4793273--4793327 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
4793263 GAAATTTTAA
4793273 AATATTTAAACA-TTAAAAAAAT
1 AATATTTAAA-ATTTAAAAAAAT
4793295 AATATTTAAAATTTAAAAAAAT
1 AATATTTAAAATTTAAAAAAAT
*
4793317 AAT-TTCAAAAT
1 AATATTTAAAAT
4793328 ATATATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAAT
Found at i:4793356 original size:24 final size:26
Alignment explanation
Indices: 4793307--4793358 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
4793297 TATTTAAAAT
4793307 TTAAAAAAATAATTTCAAAATATATA
1 TTAAAAAAATAATTTCAAAATATATA
*
4793333 TTAATAAAAT-ATTTC-AAATATATA
1 TTAAAAAAATAATTTCAAAATATATA
4793357 TT
1 TT
4793359 TCAAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 5 0.20
26 9 0.36
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
TTAAAAAAATAATTTCAAAATATATA
Found at i:4793401 original size:14 final size:15
Alignment explanation
Indices: 4793376--4793405 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4793366 TTTTAAAGTT
4793376 AATAATAATAAATAA
1 AATAATAATAAATAA
4793391 AATAA-AATAAATAA
1 AATAATAATAAATAA
4793405 A
1 A
4793406 GACAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:4793444 original size:13 final size:13
Alignment explanation
Indices: 4793409--4793447 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4793399 AAATAAAGAC
4793409 AAAAAAACAAAAGT
1 AAAAAAA-AAAAGT
**
4793423 AAAGTAAAAAAGT
1 AAAAAAAAAAAGT
4793436 AAAAAAAAAAAG
1 AAAAAAAAAAAG
4793448 ACTGACATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (13 bp):
AAAAAAAAAAAGT
Found at i:4796719 original size:51 final size:51
Alignment explanation
Indices: 4796653--4796756 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
4796643 GACAAGCAAC
4796653 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
* *
4796704 AAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGATAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
4796755 AA
1 AA
4796757 ATGTGATCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (51 bp):
AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
Found at i:4801136 original size:29 final size:29
Alignment explanation
Indices: 4801088--4801163 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
4801078 TTAAAAAATC
* *
4801088 TAAAAAAATA-AGAAAGTTATTAAAACTAT
1 TAAAAAAATATA-AAAATTATAAAAACTAT
*
4801117 TAAAAAAATATAAAAATTATAAAAATTAT
1 TAAAAAAATATAAAAATTATAAAAACTAT
* * *
4801146 TATAAAATTATTAAAATT
1 TAAAAAAATATAAAAATT
4801164 GAAAAATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 39 0.98
30 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAAAAAATATAAAAATTATAAAAACTAT
Found at i:4801154 original size:11 final size:10
Alignment explanation
Indices: 4801104--4801161 Score: 59
Period size: 9 Copynumber: 5.9 Consensus size: 10
4801094 AATAAGAAAG
4801104 TTATT-AAAA
1 TTATTAAAAA
*
4801113 CTATTAAAAA
1 TTATTAAAAA
*
4801123 -AATATAAAAA
1 TTAT-TAAAAA
4801133 TTA-TAAAAA
1 TTATTAAAAA
4801142 TTATTATAAAA
1 TTATTA-AAAA
4801153 TTATTAAAA
1 TTATTAAAA
4801162 TTGAAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
9 15 0.37
10 15 0.37
11 11 0.27
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:4806916 original size:20 final size:21
Alignment explanation
Indices: 4806891--4806936 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
4806881 CTAAACCCCA
4806891 AAACCC-AACACATTA-AATAT
1 AAACCCAAACACATTACAAT-T
*
4806911 AAACCCAAATACATTACAATT
1 AAACCCAAACACATTACAATT
4806932 AAACC
1 AAACC
4806937 AATCCATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 14 0.61
22 3 0.13
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (21 bp):
AAACCCAAACACATTACAATT
Found at i:4807520 original size:14 final size:14
Alignment explanation
Indices: 4807497--4807534 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
4807487 AACTCTAAAT
4807497 ATAC-AAAAATATA
1 ATACAAAAAATATA
4807510 ATACAAAAAATATA
1 ATACAAAAAATATA
*
4807524 ACA-AAAAAATA
1 ATACAAAAAATA
4807535 AAAAAATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (14 bp):
ATACAAAAAATATA
Found at i:4807527 original size:12 final size:12
Alignment explanation
Indices: 4807493--4807540 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 12
4807483 AATAAACTCT
4807493 AAATAT-AC-AA
1 AAATATAACAAA
4807503 AAATATAATACAAA
1 AAATAT-A-ACAAA
4807517 AAATATAACAAA
1 AAATATAACAAA
4807529 AAA-ATAA-AAA
1 AAATATAACAAA
4807539 AA
1 AA
4807541 TCTAACCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 11 0.32
11 4 0.12
12 8 0.24
13 3 0.09
14 8 0.24
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
AAATATAACAAA
Found at i:4808374 original size:22 final size:21
Alignment explanation
Indices: 4808346--4808387 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4808336 CTCAACTTTA
*
4808346 ATATATATTACATATAGTATTT
1 ATATATAGTACATATA-TATTT
*
4808368 ATATATAGTACGTATATATT
1 ATATATAGTACATATATATT
4808388 ATGTATGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (21 bp):
ATATATAGTACATATATATTT
Found at i:4810841 original size:20 final size:19
Alignment explanation
Indices: 4810818--4810861 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
4810808 AAAAATTACA
*
4810818 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAAT-ATTTAT
* *
4810838 AAAAATTTAAAATATTTAT
1 AAAAAATCAAAATATTTAT
4810857 AAAAA
1 AAAAA
4810862 TTTCAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAAATCAAAATATTTAT
Found at i:4810843 original size:19 final size:18
Alignment explanation
Indices: 4810819--4810862 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
4810809 AAAATTACAA
*
4810819 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
*
4810838 AAAAATTTAAAATATTTAT
1 AAAAA-TCAAAATATTTAT
4810857 AAAAAT
1 AAAAAT
4810863 TTCAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:4810869 original size:20 final size:21
Alignment explanation
Indices: 4810824--4810874 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
4810814 TACAAAAAAA
*
4810824 TCAAAATAATTTTTAAAAATT
1 TCAAAATAATTTATAAAAATT
4810845 T-AAAAT-ATTTATAAAAATT
1 TCAAAATAATTTATAAAAATT
4810864 TCAAAACTAAT
1 TCAAAA-TAAT
4810875 AGTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 13 0.50
20 9 0.35
21 2 0.08
22 2 0.08
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (21 bp):
TCAAAATAATTTATAAAAATT
Found at i:4812527 original size:10 final size:10
Alignment explanation
Indices: 4812512--4812536 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4812502 TAAATACATT
4812512 TAATTAAAGA
1 TAATTAAAGA
4812522 TAATTAAAGA
1 TAATTAAAGA
4812532 TAATT
1 TAATT
4812537 CAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:4813193 original size:10 final size:10
Alignment explanation
Indices: 4813180--4813224 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
4813170 TAGTACTTAT
4813180 TTTTTTCTTC
1 TTTTTTCTTC
*
4813190 TTTTTTTTTC
1 TTTTTTCTTC
4813200 TTTTTT-TTC
1 TTTTTTCTTC
4813209 TTTTTTTCTT-
1 -TTTTTTCTTC
4813219 TTTTTT
1 TTTTTT
4813225 AATTTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 9 0.28
10 21 0.66
11 2 0.06
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:4813203 original size:8 final size:8
Alignment explanation
Indices: 4813179--4813223 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
4813169 TTAGTACTTA
4813179 TTTTTTTC
1 TTTTTTTC
*
4813187 TTCTTTT-
1 TTTTTTTC
*
4813194 TTTTTCT-
1 TTTTTTTC
4813201 TTTTTTTC
1 TTTTTTTC
4813209 TTTTTTTC
1 TTTTTTTC
4813217 TTTTTTT
1 TTTTTTT
4813224 TAATTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 11 0.34
8 21 0.66
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTC
Found at i:4813203 original size:9 final size:9
Alignment explanation
Indices: 4813180--4813224 Score: 65
Period size: 9 Copynumber: 4.9 Consensus size: 9
4813170 TAGTACTTAT
4813180 TTTTTTCTTC
1 TTTTTT-TTC
4813190 TTTTTTTTTC
1 -TTTTTTTTC
4813200 TTTTTTTTC
1 TTTTTTTTC
4813209 -TTTTTTTC
1 TTTTTTTTC
4813217 TTTTTTTT
1 TTTTTTTT
4813225 AATTTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.24
9 16 0.48
10 3 0.09
11 6 0.18
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:4813214 original size:17 final size:17
Alignment explanation
Indices: 4813192--4813224 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4813182 TTTTCTTCTT
4813192 TTTTTTTCTTTTTTTTC
1 TTTTTTTCTTTTTTTTC
4813209 TTTTTTTCTTTTTTTT
1 TTTTTTTCTTTTTTTT
4813225 AATTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTTTCTTTTTTTTC
Found at i:4813230 original size:17 final size:17
Alignment explanation
Indices: 4813193--4813230 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4813183 TTTCTTCTTT
**
4813193 TTTTTTCTTTTTTTTCT
1 TTTTTTCTTTTTTTTAA
4813210 TTTTTTCTTTTTTTTAA
1 TTTTTTCTTTTTTTTAA
4813227 TTTT
1 TTTT
4813231 ATTATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTAA
Found at i:4813509 original size:118 final size:118
Alignment explanation
Indices: 4813349--4813579 Score: 363
Period size: 118 Copynumber: 2.0 Consensus size: 118
4813339 TATTTCCGGT
* *
4813349 TAGCGGAGTTTTACCCAACACGTCACACAGCCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAATAGAATGACAACCCAAGCAC
* * *
4813414 TCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAATCAGTCACGATTTAAGCCATACTCATAACCTCGGC
****
4813467 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAATAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAATAGAATGACAACCCAAGCAC
**
4813532 CCTACCCCGGTTACTCAATCAGTCACGATTTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAATCAGTCACGATTTAAGCCATACTCATAACC
4813580 ATGGAAAACT
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
118 102 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAATAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAATCAGTCACGATTTAAGCCATACTCATAACCTCGGC
Found at i:4814552 original size:17 final size:17
Alignment explanation
Indices: 4814530--4814568 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4814520 AATATTTAAC
4814530 TAAAATAAAATAATAAA
1 TAAAATAAAATAATAAA
4814547 TAAAATAAAATAATAAA
1 TAAAATAAAATAATAAA
4814564 TAAAA
1 TAAAA
4814569 AGAAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
TAAAATAAAATAATAAA
Found at i:4814601 original size:5 final size:6
Alignment explanation
Indices: 4814531--4814608 Score: 65
Period size: 6 Copynumber: 12.7 Consensus size: 6
4814521 ATATTTAACT
*
4814531 AAAAT- AAAATA ATAAAT- AAAAT- AAAATA ATAAATA AAAAGA AAGAA-A
1 AAAATA AAAATA A-AAATA AAAATA AAAATA A-AAATA AAAATA AA-AATA
4814578 GGAAAATA ATAAATA AAAATA AAAATA AAAA
1 --AAAATA A-AAATA AAAATA AAAATA AAAA
4814609 GAAAGATTGG
Statistics
Matches: 63, Mismatches: 1, Indels: 17
0.78 0.01 0.21
Matches are distributed among these distances:
5 14 0.22
6 26 0.41
7 20 0.32
8 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:4820808 original size:10 final size:10
Alignment explanation
Indices: 4820793--4820824 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
4820783 TAAATACATT
4820793 TAATTAAAGA
1 TAATTAAAGA
4820803 TAATTAAAGA
1 TAATTAAAGA
4820813 TAATTAAA-A
1 TAATTAAAGA
4820822 TAA
1 TAA
4820825 AATCATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:4830791 original size:18 final size:18
Alignment explanation
Indices: 4830754--4830791 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4830744 AAAAAATCAC
*
4830754 ATTTTTTATATTTAATAT
1 ATTTTTTATATTTAAAAT
4830772 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTATATTT-AAAAT
4830790 AT
1 AT
4830792 ATGTGACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:4839179 original size:17 final size:18
Alignment explanation
Indices: 4839149--4839184 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4839139 AGTTGAACCA
4839149 ATTTTTCTAATTTTTAAT
1 ATTTTTCTAATTTTTAAT
*
4839167 ATTTTT-TATTTTTTAAT
1 ATTTTTCTAATTTTTAAT
4839184 A
1 A
4839185 ATTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTCTAATTTTTAAT
Found at i:4841164 original size:28 final size:27
Alignment explanation
Indices: 4841133--4841185 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4841123 TTTCTTTTTC
*
4841133 TTTTTT-AATAATA-TTGAAATCTGAAA
1 TTTTTTCAAAAATATTTG-AATCTGAAA
4841159 TTTTTTCAAAAATATTTGAATCTGAAA
1 TTTTTTCAAAAATATTTGAATCTGAAA
4841186 ATGAGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 15 0.62
28 3 0.12
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.45
Consensus pattern (27 bp):
TTTTTTCAAAAATATTTGAATCTGAAA
Found at i:4842250 original size:20 final size:20
Alignment explanation
Indices: 4842185--4842254 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 20
4842175 AAATATGTTT
4842185 AAAAATT-TTAAAAATT-TT-
1 AAAAATTATT-AAAATTATTA
*
4842203 AAAAA-TATTAACATTGA-TA
1 AAAAATTATTAAAATT-ATTA
* *
4842222 TAAACTTATTAAAATTATTA
1 AAAAATTATTAAAATTATTA
4842242 AAAAATTA-TAAAA
1 AAAAATTATTAAAA
4842255 ACTTGTAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
17 6 0.15
18 8 0.20
19 9 0.22
20 17 0.43
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (20 bp):
AAAAATTATTAAAATTATTA
Found at i:4842268 original size:19 final size:17
Alignment explanation
Indices: 4842138--4842289 Score: 80
Period size: 19 Copynumber: 8.5 Consensus size: 17
4842128 CATAAAAATG
*
4842138 ATTA-AAAATTAGAAAAA
1 ATTATAAAATTA-TAAAA
4842155 ATTATAAAA--ATAAAA
1 ATTATAAAATTATAAAA
* *
4842170 ATTTTAAATATGTTTAAAA
1 ATTATAAA-AT-TATAAAA
* *
4842189 ATTTTAAAAATTTTAAAA
1 ATTAT-AAAATTATAAAA
*
4842207 A-TATTAACATTGATATAAA
1 ATTA-TAAAATT-ATA-AAA
*
4842226 CTTATTAAAATTATTAAAAA
1 ATTA-TAAAATTA-T-AAAA
* *
4842246 ATTATAAAAACTTGTAAAT
1 ATTAT-AAAA-TTATAAAA
4842265 ATTATAAAATTAT-AAA
1 ATTATAAAATTATAAAA
4842281 ATTATAAAA
1 ATTATAAAA
4842290 AAAATTACAA
Statistics
Matches: 108, Mismatches: 13, Indels: 29
0.72 0.09 0.19
Matches are distributed among these distances:
15 11 0.10
16 13 0.12
17 13 0.12
18 19 0.18
19 25 0.23
20 24 0.22
21 3 0.03
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTATAAAATTATAAAA
Found at i:4842291 original size:10 final size:9
Alignment explanation
Indices: 4842129--4842290 Score: 93
Period size: 9 Copynumber: 17.8 Consensus size: 9
4842119 CATTTTTTCC
*
4842129 ATAAAAATG
1 ATAAAAATT
4842138 ATTAAAAATT
1 A-TAAAAATT
*
4842148 AGAAAAAATT
1 A-TAAAAATT
4842158 AT-AAAA--
1 ATAAAAATT
4842164 ATAAAAATT
1 ATAAAAATT
* *
4842173 TTAAATATGT
1 ATAAAAAT-T
*
4842183 TTAAAAATT
1 ATAAAAATT
*
4842192 TTAAAAATT
1 ATAAAAATT
*
4842201 TTAAAAA-T
1 ATAAAAATT
* *
4842209 ATTAACATT
1 ATAAAAATT
*
4842218 GATATAAACTT
1 -ATA-AAAATT
*
4842229 ATTAAAATT
1 ATAAAAATT
4842238 ATTAAAAAATT
1 A-T-AAAAATT
4842249 ATAAAAACTT
1 ATAAAAA-TT
* *
4842259 GTAAATATT
1 ATAAAAATT
4842268 AT-AAAATT
1 ATAAAAATT
4842276 AT-AAAATT
1 ATAAAAATT
4842284 ATAAAAA
1 ATAAAAA
4842291 AAATTACAAA
Statistics
Matches: 121, Mismatches: 20, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
6 2 0.02
7 4 0.03
8 24 0.20
9 43 0.36
10 37 0.31
11 11 0.09
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (9 bp):
ATAAAAATT
Found at i:4842377 original size:18 final size:19
Alignment explanation
Indices: 4842354--4842389 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4842344 TTAGAATTCT
4842354 TAAAAATAATA-AAAAATG
1 TAAAAATAATATAAAAATG
*
4842372 TAAAAATACTATAAAAAT
1 TAAAAATAATATAAAAAT
4842390 ATTCAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
TAAAAATAATATAAAAATG
Found at i:4842873 original size:9 final size:9
Alignment explanation
Indices: 4842833--4843019 Score: 60
Period size: 10 Copynumber: 19.3 Consensus size: 9
4842823 TTTTATTTTA
4842833 TTTTATAAGT
1 TTTTATAA-T
*
4842843 TTATATCAAT
1 TTTTAT-AAT
* *
4842853 TTTAAT-AC
1 TTTTATAAT
4842861 TTTTATAATT
1 TTTTATAA-T
*
4842871 TTTTACAATTT
1 TTTTATAA--T
*
4842882 TTTTATTATT
1 TTTTA-TAAT
*
4842892 TTTGTAGAAT
1 TTT-TATAAT
* *
4842902 TTTAATATGT
1 TTTTATA-AT
*
4842912 TTTTATAAAA
1 TTTTAT-AAT
4842922 TTTTA-AAT
1 TTTTATAAT
*
4842930 ATTTTAAATAT
1 -TTTTATA-AT
4842941 GTTTTATTAA-
1 -TTTTA-TAAT
4842951 TTTTATAAT
1 TTTTATAAT
4842960 TTTTATAAGT
1 TTTTATAA-T
*
4842970 TTATATCAAT
1 TTTTAT-AAT
*
4842980 TTTCAT-AT
1 TTTTATAAT
4842988 TTTT-TAATTT
1 TTTTATAA--T
*
4842998 TTTTTTAAT
1 TTTTATAAT
4843007 TTTTATGAAT
1 TTTTAT-AAT
4843017 TTT
1 TTT
4843020 CTTTTTTTCA
Statistics
Matches: 132, Mismatches: 25, Indels: 40
0.67 0.13 0.20
Matches are distributed among these distances:
7 1 0.01
8 17 0.13
9 27 0.20
10 60 0.45
11 25 0.19
12 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:4842887 original size:21 final size:22
Alignment explanation
Indices: 4842861--4842904 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4842851 ATTTTAATAC
4842861 TTTTATAATTTTT-TACAATTT
1 TTTTATAATTTTTGTACAATTT
* *
4842882 TTTTATTATTTTTGTAGAATTT
1 TTTTATAATTTTTGTACAATTT
4842904 T
1 T
4842905 AATATGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTATAATTTTTGTACAATTT
Found at i:4842893 original size:10 final size:10
Alignment explanation
Indices: 4842861--4843019 Score: 61
Period size: 9 Copynumber: 16.2 Consensus size: 10
4842851 ATTTTAATAC
4842861 TTTTATAATT
1 TTTTATAATT
*
4842871 TTTTACAATTT
1 TTTTATAA-TT
*
4842882 TTTTATTATT
1 TTTTATAATT
*
4842892 TTTGTAGAA-T
1 TTT-TATAATT
*
4842902 TTTAAT-ATGT
1 TTTTATAAT-T
**
4842912 TTTTATAAAA
1 TTTTATAATT
*
4842922 TTTTA-AATA
1 TTTTATAATT
4842931 TTTTA-AATAT
1 TTTTATAAT-T
4842941 GTTTTATTAA--
1 -TTTTA-TAATT
4842951 TTTTATAA-T
1 TTTTATAATT
*
4842960 TTTTATAAGT
1 TTTTATAATT
*
4842970 TTATATCAA-T
1 TTTTAT-AATT
*
4842980 TTTCAT-ATT
1 TTTTATAATT
*
4842989 TTTTA-ATTT
1 TTTTATAATT
*
4842998 TTTTTTAA-T
1 TTTTATAATT
4843007 TTTTATGAATT
1 TTTTAT-AATT
4843018 TT
1 TT
4843020 CTTTTTTTCA
Statistics
Matches: 112, Mismatches: 20, Indels: 33
0.68 0.12 0.20
Matches are distributed among these distances:
8 5 0.04
9 42 0.38
10 41 0.37
11 22 0.20
13 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:4842946 original size:30 final size:31
Alignment explanation
Indices: 4842861--4842964 Score: 87
Period size: 30 Copynumber: 3.5 Consensus size: 31
4842851 ATTTTAATAC
* * *
4842861 TTTTATAATTTTTTACAAT-T-TTTTTATTAT
1 TTTTATAATATTTTA-AATATGTTTTTATAAA
*
4842891 TTTTGTAGA-ATTTT-AATATGTTTTTATAAAA
1 TTTTATA-ATATTTTAAATATGTTTTTAT-AAA
*
4842922 TTTTA-AATATTTTAAATATG-TTTTATTAA
1 TTTTATAATATTTTAAATATGTTTTTATAAA
4842951 TTTTATAAT-TTTTA
1 TTTTATAATATTTTA
4842965 TAAGTTTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
28 3 0.05
29 14 0.23
30 32 0.52
31 12 0.20
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (31 bp):
TTTTATAATATTTTAAATATGTTTTTATAAA
Found at i:4843003 original size:21 final size:22
Alignment explanation
Indices: 4842986--4843025 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
4842976 CAATTTTCAT
4842986 ATTTTT-T-AATTTT-TTTTTA
1 ATTTTTATGAATTTTCTTTTTA
4843005 ATTTTTATGAATTTTCTTTTT
1 ATTTTTATGAATTTTCTTTTT
4843026 TTCATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (22 bp):
ATTTTTATGAATTTTCTTTTTA
Found at i:4843040 original size:28 final size:26
Alignment explanation
Indices: 4842995--4843047 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
4842985 TATTTTTTAA
*
4842995 TTTTTTTTTAATTTTTATGAATTTTC
1 TTTTTTTATAATTTTTATGAATTTTC
*
4843021 TTTTTTTCATAATTTCTTATGACTTTT
1 TTTTTTT-ATAATTT-TTATGAATTTT
4843048 AATTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 6 0.26
28 10 0.43
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTTTTTATAATTTTTATGAATTTTC
Found at i:4844684 original size:25 final size:25
Alignment explanation
Indices: 4844666--4844745 Score: 99
Period size: 25 Copynumber: 3.1 Consensus size: 25
4844656 ATTTACTTAT
4844666 TAAATAAGA-AATAATATTTATAATA
1 TAAA-AAGATAATAATATTTATAATA
*
4844691 TAAAAATATAATAATATTTATAATA
1 TAAAAAGATAATAATATTTATAATA
* *
4844716 TAAAAATATAATAATAATGATATAATA
1 TAAAAAGATAATAAT-AT-TTATAATA
4844743 TAA
1 TAA
4844746 TAAAAAAGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.06
25 35 0.70
26 2 0.04
27 10 0.20
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (25 bp):
TAAAAAGATAATAATATTTATAATA
Found at i:4844700 original size:8 final size:8
Alignment explanation
Indices: 4844675--4844748 Score: 67
Period size: 8 Copynumber: 8.6 Consensus size: 8
4844665 TTAAATAAGA
4844675 AATAATATT
1 AATAATA-T
*
4844684 TATAATAT
1 AATAATAT
*
4844692 AAAAATAT
1 AATAATAT
4844700 AATAATATT
1 AATAATA-T
*
4844709 TATAATAT
1 AATAATAT
*
4844717 AAAAATAT
1 AATAATAT
4844725 AATAATAAT
1 AATAAT-AT
4844734 GATATAATAT
1 -A-ATAATAT
4844744 AATAA
1 AATAA
4844749 AAAAGAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
8 29 0.55
9 16 0.30
10 3 0.06
11 5 0.09
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (8 bp):
AATAATAT
Found at i:4847042 original size:15 final size:15
Alignment explanation
Indices: 4847022--4847053 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4847012 CAATTCACTA
*
4847022 TTATGTCTTTTGTAT
1 TTATGTCTTTTCTAT
4847037 TTATGTCTTTTCTAT
1 TTATGTCTTTTCTAT
4847052 TT
1 TT
4847054 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTCTAT
Found at i:4851619 original size:16 final size:17
Alignment explanation
Indices: 4851598--4851638 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
4851588 TTTATAATCT
4851598 AAAATTAAAAAAAT-TA
1 AAAATTAAAAAAATATA
*
4851614 AAAATT-TAAAAATATA
1 AAAATTAAAAAAATATA
*
4851630 AAAACTAAA
1 AAAATTAAA
4851639 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 6 0.30
16 13 0.65
17 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATTAAAAAAATATA
Found at i:4851624 original size:23 final size:23
Alignment explanation
Indices: 4851597--4851662 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
4851587 TTTTATAATC
4851597 TAAAATTAAAAAAATTAAAAATT
1 TAAAATTAAAAAAATTAAAAATT
* * * **
4851620 TAAAAATATAAAAACTAAATTTT
1 TAAAATTAAAAAAATTAAAAATT
**
4851643 TAATTTTAAAAAAATATAAA
1 TAAAATTAAAAAAAT-TAAA
4851663 CACTATAAAC
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
23 28 0.88
24 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAATTAAAAAAATTAAAAATT
Found at i:4853585 original size:59 final size:60
Alignment explanation
Indices: 4853519--4853637 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 60
4853509 GTTCGTAAAA
4853519 TGCTAAAATTCAAATGTTGACACTAGATTTATCTTTATATTTATATCATAGTA-TAGTAC
1 TGCTAAAATTCAAATGTTGACACTAGATTTATCTTTATATTTATATCATAGTATTAGTAC
*
4853578 TGCTAAAATTCAAATGTTGACACTGGATTTATCTTTATATTTATATCATAGTATTAGTAC
1 TGCTAAAATTCAAATGTTGACACTAGATTTATCTTTATATTTATATCATAGTATTAGTAC
4853638 AACAATATCT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 52 0.90
60 6 0.10
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (60 bp):
TGCTAAAATTCAAATGTTGACACTAGATTTATCTTTATATTTATATCATAGTATTAGTAC
Found at i:4858358 original size:25 final size:25
Alignment explanation
Indices: 4858329--4858414 Score: 172
Period size: 25 Copynumber: 3.4 Consensus size: 25
4858319 TTTTTATATA
4858329 AAAATATTTTATATTTAAAATAGTG
1 AAAATATTTTATATTTAAAATAGTG
4858354 AAAATATTTTATATTTAAAATAGTG
1 AAAATATTTTATATTTAAAATAGTG
4858379 AAAATATTTTATATTTAAAATAGTG
1 AAAATATTTTATATTTAAAATAGTG
4858404 AAAATATTTTA
1 AAAATATTTTA
4858415 AAAGGTGTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (25 bp):
AAAATATTTTATATTTAAAATAGTG
Found at i:4859770 original size:30 final size:30
Alignment explanation
Indices: 4859714--4859771 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
4859704 TAACTTTTTG
* * *
4859714 TTTTTGGAGAGGGCATAATTAGATTTTAAA
1 TTTTTAGAGAGGCCAAAATTAGATTTTAAA
4859744 TTTTTAGAGAGGCCAAAATATA-ATTTTA
1 TTTTTAGAGAGGCCAAAAT-TAGATTTTA
4859772 CTATTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (30 bp):
TTTTTAGAGAGGCCAAAATTAGATTTTAAA
Found at i:4869904 original size:46 final size:45
Alignment explanation
Indices: 4869796--4870004 Score: 232
Period size: 46 Copynumber: 4.6 Consensus size: 45
4869786 ATCGCGATTC
* *
4869796 AAATGTGTAAGACCATGGTTGAAAGATACCAT-G-ACAATGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGAAC-ATGACATG
* *
4869840 AAATGTGTAAGACCATGGTTGAAAGATACTATGGTAACATGACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGG-AACATGACATG
* * * *
4869886 AAATGAATAAAACCATGGTTGAAAGATACCATGACAACATGACGAGG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATG-GAACATGAC-ATG
*
4869933 AAAT--G-AAGACCATGGTTGAAAGATACCATGGAAACTTGACA-G
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGG-AACATGACATG
*
4869975 AAAATGAGTAAGACCATAGTTGAAAGATAC
1 -AAATGAGTAAGACCATGGTTGAAAGATAC
4870005 TATAGCATCA
Statistics
Matches: 142, Mismatches: 13, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
44 62 0.44
45 2 0.01
46 64 0.45
47 8 0.06
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGAACATGACATG
Found at i:4869920 original size:90 final size:90
Alignment explanation
Indices: 4869807--4870004 Score: 260
Period size: 90 Copynumber: 2.2 Consensus size: 90
4869797 AATGTGTAAG
* *
4869807 ACCATGGTTGAAAGATACCATGAC-A-ATGA-TATGAAATGTGTAAGACCATGGTTGAAAGATAC
1 ACCATGGTTGAAAGATACCATGACAACATGACGAGGAAA--TG-AAGACCATGGTTGAAAGATAC
* *
4869869 TATGGTAACATGACATG-AAATGAATAAA
63 CATGGAAACATGACA-GAAAATGAATAAA
4869897 ACCATGGTTGAAAGATACCATGACAACATGACGAGGAAATGAAGACCATGGTTGAAAGATACCAT
1 ACCATGGTTGAAAGATACCATGACAACATGACGAGGAAATGAAGACCATGGTTGAAAGATACCAT
* * *
4869962 GGAAACTTGACAGAAAATGAGTAAG
66 GGAAACATGACAGAAAATGAATAAA
*
4869987 ACCATAGTTGAAAGATAC
1 ACCATGGTTGAAAGATAC
4870005 TATAGCATCA
Statistics
Matches: 96, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
89 1 0.01
90 83 0.86
91 3 0.03
92 4 0.04
93 5 0.05
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (90 bp):
ACCATGGTTGAAAGATACCATGACAACATGACGAGGAAATGAAGACCATGGTTGAAAGATACCAT
GGAAACATGACAGAAAATGAATAAA
Found at i:4871840 original size:31 final size:31
Alignment explanation
Indices: 4871800--4871876 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
4871790 TGATATTTTA
*
4871800 TAATTTTTTAATTAGATAATTATTATT-TATT
1 TAATATTTTAATTAGATAATTATTATTAT-TT
* **
4871831 TAATATTTTAATAAGATGTTTATTATTATTT
1 TAATATTTTAATTAGATAATTATTATTATTT
* *
4871862 TATTATTTTATTTAG
1 TAATATTTTAATTAG
4871877 TATATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (31 bp):
TAATATTTTAATTAGATAATTATTATTATTT
Found at i:4878783 original size:32 final size:34
Alignment explanation
Indices: 4878736--4878802 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
4878726 ATTCTTTCAA
4878736 TATTAATAACTTTCTATTATTAAATAA-TATTCT
1 TATTAATAACTTTCTATTATTAAATAATTATTCT
4878769 TATTAATAAC-TTCTATTATTAAATAATTATTCT
1 TATTAATAACTTTCTATTATTAAATAATTATTCT
4878802 T
1 T
4878803 CCTAACTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 16 0.48
33 17 0.52
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (34 bp):
TATTAATAACTTTCTATTATTAAATAATTATTCT
Found at i:4878801 original size:19 final size:18
Alignment explanation
Indices: 4878747--4878801 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 18
4878737 ATTAATAACT
4878747 TTCTATTATTAAATAATA
1 TTCTATTATTAAATAATA
*
4878765 TTC--TTATT-AATAA-C
1 TTCTATTATTAAATAATA
4878779 TTCTATTATTAAATAATTA
1 TTCTATTATTAAATAA-TA
4878798 TTCT
1 TTCT
4878802 TCCTAACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 5 0.17
16 10 0.33
17 5 0.17
18 3 0.10
19 4 0.13
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
TTCTATTATTAAATAATA
Found at i:4884695 original size:44 final size:43
Alignment explanation
Indices: 4884647--4885165 Score: 199
Period size: 44 Copynumber: 11.7 Consensus size: 43
4884637 AATTCACAAC
* * *
4884647 CTTATCTCTCTGAGGTAGTAAGAGAACAGGTTGAAGATTGAAGT
1 CTTATCTCTCTGAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* * * * *
4884691 CTTATCTTTCTGGGGTAGTAAGGAAGCAGACTG-AGGTTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGG-AGCAGATTGAAGATTGAAG-T
* *
4884735 CTTATCTC-CATGAGGGAGCAATGGAGCAGATCGAAGATGGTGAA-T
1 CTTATCTCTC-TGAGGTAGCAA-GGAGCAGATTGAAGAT--TGAAGT
* * * ** * *
4884780 CTTATCT-TCCCGAGGTAGCAGGGGAGTAGATTTTAG--TCATAGC
1 CTTATCTCT-CTGAGGTAGCA-AGGAGCAGATTGAAGATTGA-AGT
*
4884823 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTCTCTGAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
** *
4884867 CTTATCT-TCCTGAGGTAGCAAAAAAGCAGACT-AAGGATTGAAGAT
1 CTTATCTCT-CTGAGGTAGC-AAGGAGCAGATTGAA-GATTGAAG-T
* * * * ** *
4884912 CTTATCTCCCTAAACAGTAG-TA-GAGCAGATCAAAGATGGCGAA-T
1 CTTATCTCTCT-GA-GGTAGCAAGGAGCAGATTGAAGAT--TGAAGT
** ***** *
4884956 CTTATCT-TCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAGC
1 CTTATCTCTCT-GAGGTAGCA-AGGAGCAGATTGAAGATTGAAGT
* * *
4885000 CTTATCTCTCTGAGGTAGCGAGAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTCTCTGAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* * * *
4885044 CTTATCT-TCCTGAGATAGTAAGGAAGCAGACTGAATATT-ATAGAT
1 CTTATCTCT-CTGAGGTAGCAAGG-AGCAGATTGAAGATTGA-AG-T
* * * * *
4885089 CTTATCTC-CATTAGGTAGCAATAGAGCAAATCGAAGATGGCGAA-T
1 CTTATCTCTC-TGAGGTAGCAA-GGAGCAGATTGAAGAT--TGAAGT
4885134 CTTATCTC-CTTGAGGTAGCAAGGGAGCAGATT
1 CTTATCTCTC-TGAGGTAGCAA-GGAGCAGATT
4885166 TAAGCCACTA
Statistics
Matches: 345, Mismatches: 88, Indels: 83
0.67 0.17 0.16
Matches are distributed among these distances:
41 2 0.01
42 6 0.02
43 47 0.14
44 160 0.46
45 114 0.33
46 6 0.02
47 9 0.03
48 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGCAAGGAGCAGATTGAAGATTGAAGT
Found at i:4885029 original size:177 final size:177
Alignment explanation
Indices: 4884646--4885251 Score: 715
Period size: 177 Copynumber: 3.4 Consensus size: 177
4884636 GAATTCACAA
* * * * *
4884646 CCTTATCTCTCTGAGGTAGTAAGAGAACAGGTTGAAGATTGAAGTCTTATCTTTCTGGGGTAGTA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
* * *
4884711 AGGAAGCAGACTGAGG-TTGAAGATCTTATCTCCATGAGGGAGCAATGGAGCAGATCGAAGATGG
66 AGGAAGCAGACTAAGGATTGAAGATCTTATCTCCAT-AGGCAGCAATAGAGCAGATCGAAGATGG
* * * * *
4884775 TGAATCTTATCTTCCCGAGGTAGCAGGGGAGTAGATTTTAGTCA-TAG
130 CGAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACTAG
4884822 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
** * ** * * *
4884887 AAAAAGCAGACTAAGGATTGAAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCAAAGATGGC
66 AGGAAGCAGACTAAGGATTGAAGATCTTATCTCCATAGGCAGCAATAGAGCAGATCGAAGATGGC
*
4884952 GAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAG
131 GAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACTAG
* * * *
4884999 CCTTATCTCTCTGAGGTAGCGAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGATAGTA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
* * *
4885064 AGGAAGCAGACTGAA-TATT-ATAGATCTTATCTCCATTAGGTAGCAATAGAGCAAATCGAAGAT
66 AGGAAGCAGACT-AAGGATTGA-AGATCTTATCTCCA-TAGGCAGCAATAGAGCAGATCGAAGAT
* * *
4885127 GGCGAATCTTATCTCCTTGAGGTAGCA-AGGGAGCAGATTTAAGCCACTAG
128 GGCGAATCTTATCTTCTCGAGGTAGCAGA-GGAGCAGATTTTAGCCACTAG
* * * * * * *
4885177 CCTTGTCT-TCCTGA-GCAGCAATAGAGCAAGCTGAAGATTGTAGATATTATC-TCCATGAGGTA
1 CCTTATCTCT-CTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAG-TCTTATCTTCC-TGAGGTA
* *
4885239 GCAATGTAGCAGA
63 GCAAGGAAGCAGA
4885252 TCGAAGACGG
Statistics
Matches: 369, Mismatches: 52, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
176 134 0.36
177 136 0.37
178 99 0.27
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (177 bp):
CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
AGGAAGCAGACTAAGGATTGAAGATCTTATCTCCATAGGCAGCAATAGAGCAGATCGAAGATGGC
GAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACTAG
Found at i:4885227 original size:133 final size:134
Alignment explanation
Indices: 4885074--4885372 Score: 362
Period size: 133 Copynumber: 2.2 Consensus size: 134
4885064 AGGAAGCAGA
* * * * *
4885074 CTGAATATTATAGATCTTATCTCCATTAGGTAGCAATAG-AGCAAATCGAAGATGGCGAATCTTA
1 CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAAT-GTAGCAAATCGAAGACGGCGAATCTTA
* * **
4885138 TC-TCCTTGAGGTAGCAAGGGAGCAGATTTAAGCCA-CTAGCCTTGTCT-TCCTGA-GCAGCAAT
65 TCTTCC-TGAAGTAGCAAGGGAGCAGATCTAAGCCATC-AGCCTCATCTCT-CTGAGGCAGCAA-
4885199 A-GAGCAAG
126 AGGAGCAAG
* *
4885207 CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAATGTAGCAGATCGAAGACGGTGAATCTTAT
1 CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAATGTAGCAAATCGAAGACGGCGAATCTTAT
*
4885272 CTTCCTGAAGTAGCAAGGGAGCAGATCTAAGCCATCAGCCTCATCTCTCTGAGGTAGCAAAGGAG
66 CTTCCTGAAGTAGCAAGGGAGCAGATCTAAGCCATCAGCCTCATCTCTCTGAGGCAGCAAAGGAG
*
4885337 CAGG
131 CAAG
*
4885341 CTGAAGATTGTAG-TTTTATCTTCC-TGAGGTAG
1 CTGAAGATTGTAGATATTATC-TCCATGAGGTAG
4885373 TAAAGGGGCA
Statistics
Matches: 145, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
132 1 0.01
133 111 0.77
134 33 0.23
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (134 bp):
CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAATGTAGCAAATCGAAGACGGCGAATCTTAT
CTTCCTGAAGTAGCAAGGGAGCAGATCTAAGCCATCAGCCTCATCTCTCTGAGGCAGCAAAGGAG
CAAG
Found at i:4885368 original size:44 final size:44
Alignment explanation
Indices: 4885320--4885429 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
4885310 CCTCATCTCT
* * * *
4885320 CTGAGGTAGCAAAGGAGCAGGCTGAAGATTGTAG-TTTTATCTTC
1 CTGAGGTAGTAAAGGAGCAGACTAAAGATTGTAGATCTTAT-TTC
* *
4885364 CTGAGGTAGTAAAGGGGCAGACTAAAGGTTGTAGATCTTATTTC
1 CTGAGGTAGTAAAGGAGCAGACTAAAGATTGTAGATCTTATTTC
* *
4885408 CATGACGTAGTAATGGAGCAGA
1 C-TGAGGTAGTAAAGGAGCAGA
4885430 TCGAAGATGA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
44 33 0.60
45 22 0.40
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (44 bp):
CTGAGGTAGTAAAGGAGCAGACTAAAGATTGTAGATCTTATTTC
Found at i:4885402 original size:133 final size:134
Alignment explanation
Indices: 4885074--4885431 Score: 344
Period size: 133 Copynumber: 2.7 Consensus size: 134
4885064 AGGAAGCAGA
* * * * * * *
4885074 CTGAATATTATAGATCTTATCTCCATTAGGTAGCAATA-GAGCAAATCGAAGATGGCGAATCTTA
1 CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAA-AGGAGCAGATCGAAGACGGTGAATCTTA
* * * **
4885138 TC-TCCTTGAGGTAGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTTCCTGAGCAGCAATAGA
65 TCTTCCATGAAGTAGCAAGGGAGCAGATCTAAGCCACTAGCCTCATCTTCCTGAGCAGCAATAGA
4885202 GCAAG
130 GCAAG
* *
4885207 CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAATGTAGCAGATCGAAGACGGTGAATCTTAT
1 CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAAAGGAGCAGATCGAAGACGGTGAATCTTAT
*
4885272 CTTCC-TGAAGTAGCAAGGGAGCAGATCTAAGCCA-TCAGCCTCATC-TCTCTGAGGTAGCAA-A
66 CTTCCATGAAGTAGCAAGGGAGCAGATCTAAGCCACT-AGCCTCATCTTC-CTGA-GCAGCAATA
*
4885333 GGAGCAGG
128 -GAGCAAG
* * * *
4885341 CTGAAGATTGTAG-TTTTATCTTCC-TGAGGTAGTAAAGGGGCAGA-CTAA-A-GGTTGTAGATC
1 CTGAAGATTGTAGATATTATC-TCCATGAGGTAGCAAAGGAGCAGATCGAAGACGG-TG-A-ATC
* * *
4885401 TTAT-TTCCATGACGTAGTAATGGAGCAGATC
62 TTATCTTCCATGAAGTAGCAAGGGAGCAGATC
4885432 GAAGATGAAA
Statistics
Matches: 190, Mismatches: 24, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
130 2 0.01
131 3 0.02
132 11 0.06
133 143 0.75
134 31 0.16
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (134 bp):
CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAAAGGAGCAGATCGAAGACGGTGAATCTTAT
CTTCCATGAAGTAGCAAGGGAGCAGATCTAAGCCACTAGCCTCATCTTCCTGAGCAGCAATAGAG
CAAG
Found at i:4887634 original size:23 final size:20
Alignment explanation
Indices: 4887585--4887653 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
4887575 CATTTTCCAT
*
4887585 CTCCTTCTTTATCAGTCCTC
1 CTCCTTCTTCATCAGTCCTC
4887605 CTCCTTCTTCATCAGTCCAT-
1 CTCCTTCTTCATCAGTCC-TC
* * * *
4887625 CTCATTCTTCTTCATTCCTT
1 CTCCTTCTTCATCAGTCCTC
4887645 CTCCTTCTT
1 CTCCTTCTT
4887654 TTGTTCTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.95
21 1 0.02
ACGTcount: A:0.10, C:0.39, G:0.03, T:0.48
Consensus pattern (20 bp):
CTCCTTCTTCATCAGTCCTC
Found at i:4891072 original size:7 final size:7
Alignment explanation
Indices: 4891060--4891090 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
4891050 TCACATGTAC
4891060 TTTAAAA
1 TTTAAAA
4891067 TTTAAAA
1 TTTAAAA
4891074 TTTAAAA
1 TTTAAAA
4891081 TTTAAAA
1 TTTAAAA
4891088 TTT
1 TTT
4891091 TAATCCTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:4898655 original size:4 final size:4
Alignment explanation
Indices: 4898646--4898670 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4898636 TAAAGCGATG
4898646 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
4898671 AATCCACTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:4906503 original size:26 final size:26
Alignment explanation
Indices: 4906474--4906523 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4906464 ATAATTTTTA
4906474 TATTATTTATT-TTTATAAATATTAGT
1 TATTATTT-TTATTTATAAATATTAGT
*
4906500 TATTATTTTTATTTATATATATTA
1 TATTATTTTTATTTATAAATATTA
4906524 TCCATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTTTTATTTATAAATATTAGT
Found at i:4906524 original size:22 final size:22
Alignment explanation
Indices: 4906472--4906524 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
4906462 AAATAATTTT
4906472 TATATTATTTATTTTTATAAATA
1 TATATTA-TTATTTTTATAAATA
**
4906495 T-TAGTTATTATTTTTATTTATA
1 TATA-TTATTATTTTTATAAATA
4906517 TATATTAT
1 TATATTAT
4906525 CCATTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATTATTATTTTTATAAATA
Found at i:4906530 original size:26 final size:26
Alignment explanation
Indices: 4906475--4906531 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
4906465 TAATTTTTAT
*
4906475 ATTATTTATTTTTATAAATATTAGTT
1 ATTATTTATTTTTATAAATATTAGTC
*
4906501 ATTATTT-TTATTTATATATATTA-TCC
1 ATTATTTATT-TTTATAAATATTAGT-C
4906527 ATTAT
1 ATTAT
4906532 ATTAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTATTTATTTTTATAAATATTAGTC
Found at i:4906578 original size:30 final size:30
Alignment explanation
Indices: 4906538--4906599 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
4906528 TTATATTAAA
* *
4906538 TTATTGTATATTTTATCTATAAAT-TATATT
1 TTATTATATATTTCAT-TATAAATATATATT
*
4906568 TTATTATATATTTCATTATATATATATATT
1 TTATTATATATTTCATTATAAATATATATT
4906598 TT
1 TT
4906600 GTGCATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (30 bp):
TTATTATATATTTCATTATAAATATATATT
Found at i:4908885 original size:33 final size:33
Alignment explanation
Indices: 4908843--4908908 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4908833 CTTGATCAAG
4908843 TAAGAGAAAATCAATACAATTCATACTCAATGT
1 TAAGAGAAAATCAATACAATTCATACTCAATGT
4908876 TAAGAGAAAATCAATACAATTCATACTCAATGT
1 TAAGAGAAAATCAATACAATTCATACTCAATGT
4908909 AATTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.27
Consensus pattern (33 bp):
TAAGAGAAAATCAATACAATTCATACTCAATGT
Found at i:4909129 original size:50 final size:50
Alignment explanation
Indices: 4909046--4909142 Score: 142
Period size: 50 Copynumber: 1.9 Consensus size: 50
4909036 CACTTTCACT
* *
4909046 ACATTTTTAAAATATCCATACCTCTGTTTTCATTTAATGTAGTTGAAATA
1 ACATTTTTAAAATATCCATACCTCTGTTATCATTTAATGTACTTGAAATA
* *
4909096 ACATTTTTAAAATATCCATAGCT-TAGTTATCATTTAGTGTACTTGAA
1 ACATTTTTAAAATATCCATACCTCT-GTTATCATTTAATGTACTTGAA
4909143 TTTTGGGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.02
50 41 0.98
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (50 bp):
ACATTTTTAAAATATCCATACCTCTGTTATCATTTAATGTACTTGAAATA
Found at i:4910497 original size:182 final size:179
Alignment explanation
Indices: 4910159--4910501 Score: 474
Period size: 182 Copynumber: 1.9 Consensus size: 179
4910149 CTAATGAACT
* *
4910159 TGAATTTTGGGTTGTTTGATCAAGTAAGGGAAATTTGATGAAATTCATATTCAATGTAATTATTA
1 TGAATTTTGGGTTGTTGGATCAAGTAAGGGAAATTCGATGAAATTCATATTCAATGTAATTATTA
* ** *
4910224 TTTATTCTCACTCTTACGAGGATAGCTCAGTTAGGAGAGCATCAGATGGAAGATCTAAAGGTCAC
66 TTTATTATCACAATTACGAGGATAGCTCAGTTAGGAGAGCATCAAATGGAAGATCTAAAGGTCAC
* *
4910289 GTGTTTGATCCACGTTCATTGCATTTTAAAACATAAAGGAGAGTGTACA
131 GTGTTTGATCCAAGTTCATCGCATTTTAAAACATAAAGGAGAGTGTACA
*
4910338 TGAATTTTGGGTTGTTGGATCAAGTAAGGGAAATTCGATTG-AATTCATCCTT-AATGTAATTAT
1 TGAATTTTGGGTTGTTGGATCAAGTAAGGGAAATTCGA-TGAAATTCAT-ATTCAATGTAATTAT
* ** * * * * *
4910401 TATTAATTTTAATCACAATTGTGAGGATAGCTCAGTTGGGAGAGCGTCAAATTGATGATCTAATG
64 TATT--TATT-ATCACAATTACGAGGATAGCTCAGTTAGGAGAGCATCAAATGGAAGATCTAAAG
4910466 GTCACGTGTTTGATCCAAGTTCATCGCATTTTAAAA
126 GTCACGTGTTTGATCCAAGTTCATCGCATTTTAAAA
4910502 ATATCGATAA
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
179 58 0.41
180 4 0.03
181 3 0.02
182 77 0.54
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (179 bp):
TGAATTTTGGGTTGTTGGATCAAGTAAGGGAAATTCGATGAAATTCATATTCAATGTAATTATTA
TTTATTATCACAATTACGAGGATAGCTCAGTTAGGAGAGCATCAAATGGAAGATCTAAAGGTCAC
GTGTTTGATCCAAGTTCATCGCATTTTAAAACATAAAGGAGAGTGTACA
Found at i:4910626 original size:21 final size:21
Alignment explanation
Indices: 4910602--4910665 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
4910592 AGTGCACTTG
4910602 TCATTTAATGTAGTTGAAATA
1 TCATTTAATGTAGTTGAAATA
* * *
4910623 TCATTTAGTGCACTTG-----
1 TCATTTAATGTAGTTGAAATA
4910639 TCATTTAATGTAGTTGAAATA
1 TCATTTAATGTAGTTGAAATA
4910660 TCATTT
1 TCATTT
4910666 TTTAAATATG
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 13 0.41
21 19 0.59
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.45
Consensus pattern (21 bp):
TCATTTAATGTAGTTGAAATA
Found at i:4910633 original size:37 final size:37
Alignment explanation
Indices: 4910591--4910665 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
4910581 TAAATATACA
4910591 TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
1 TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
4910628 TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
1 TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
4910665 T
1 T
4910666 TTTAAATATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (37 bp):
TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
Found at i:4913378 original size:303 final size:278
Alignment explanation
Indices: 4913255--4913818 Score: 665
Period size: 288 Copynumber: 2.0 Consensus size: 278
4913245 TTTAAAATTA
* * * *
4913255 TCCATAGAGGAGAGTGTTAGAGTAAATACTTGAAGGATCA-TCTGGTCAATTC-ACTTTCACTAT
1 TCCAAAGAGGAGAGTGTTAGACTAAATACTTGAAGGATCACT-TGGTCAA-TCAACTTTCACAAC
* *
4913318 ATTTTTAGAATATCCATACCTCAATTTTCATTTAATGTAGTTGAAATAACATTCTTAAAATATGC
64 ATTTTTAAAATATCCATACCTCAATGTTCATTTAATGTAGTTGAAATAACATT-TTAAAATATGC
* * * * *
4913383 CTAGCTTAGTTATCATTTAATGCACTTGAATTTTGTGTTGTTGGATCAAATAAGGGGAATTCGAT
128 ATAGCTTAGTTATCATTTAAT-AACTTGAATTTTG-GTTGTTCGATCAAGTAAGGGAAATTCGAT
*
4913448 GCAATTCATACTCAATATAATAATAATAATTATTTTTTACTTATAATTGCGAGGATAG-TTCAGT
191 GCAATTCATACTC-A-AT-ATAAT--T-ATTA-TTTTTACTTATAGTTGCGAGGATAGCTT-AGT
* *
4913512 TGGGAGAGCGTCAGACTGAAGATCTAAAGGT
248 TGGGAGAGCGTCAGAATGAAGATCTAAAAGT
* *
4913543 TCCAAAGAGGAGAGTGTTAGACTAAATACTTGAAGGGTCACTTGGTCGATCAACTTTCACAACAT
1 TCCAAAGAGGAGAGTGTTAGACTAAATACTTGAAGGATCACTTGGTCAATCAACTTTCACAACAT
* * * *
4913608 TTTTAAAATATCCATACCTTAGTGTTCATTTAATGTAGTTGAAATAAAAATTTTAAAATATTCAT
66 TTTTAAAATATCCATACCTCAATGTTCATTTAATGTAGTTGAAAT-AACATTTTAAAATATGCAT
* * *
4913673 AGCTT-TTTATCATTTACTGAACTTGAATTTT-GTTGTTTGATCAAGTAAGGGAAATTCGATGCA
130 AGCTTAGTTATCATTTAAT-AACTTGAATTTTGGTTGTTCGATCAAGTAAGGGAAATTCGATGCA
* * * * * * *
4913736 ATTCATACTCAATGTAATTATTTTTTTTACTCACAGTTGCGAGTATAGCTCAGTTGGGAGAGCCT
194 ATTCATACTCAATATAATTATTATTTTTACTTATAGTTGCGAGGATAGCTTAGTTGGGAGAGCGT
4913801 CA-AACTGAAGATC-AAAAG
259 CAGAA-TGAAGATCTAAAAG
4913819 GTCACGTGTT
Statistics
Matches: 242, Mismatches: 29, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
277 5 0.02
278 44 0.18
279 4 0.02
280 1 0.00
282 4 0.02
283 2 0.01
284 1 0.00
285 39 0.16
287 25 0.10
288 111 0.46
289 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (278 bp):
TCCAAAGAGGAGAGTGTTAGACTAAATACTTGAAGGATCACTTGGTCAATCAACTTTCACAACAT
TTTTAAAATATCCATACCTCAATGTTCATTTAATGTAGTTGAAATAACATTTTAAAATATGCATA
GCTTAGTTATCATTTAATAACTTGAATTTTGGTTGTTCGATCAAGTAAGGGAAATTCGATGCAAT
TCATACTCAATATAATTATTATTTTTACTTATAGTTGCGAGGATAGCTTAGTTGGGAGAGCGTCA
GAATGAAGATCTAAAAGT
Found at i:4914228 original size:11 final size:11
Alignment explanation
Indices: 4914155--4914230 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
4914145 ATTTCAAAAA
*
4914155 TAATATTATTT
1 TAATATTAATT
4914166 TAATAGTTTAATAT
1 TAATA--TTAAT-T
4914180 TAA-ATTTAATT
1 TAATA-TTAATT
*
4914191 TAATATTTATCT
1 TAATATTAAT-T
*
4914203 TAATAAT-ATT
1 TAATATTAATT
4914213 T--TATTAATT
1 TAATATTAATT
4914222 TAATATTAA
1 TAATATTAA
4914231 AGTGATTGTC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:4914289 original size:20 final size:18
Alignment explanation
Indices: 4914172--4914297 Score: 69
Period size: 20 Copynumber: 7.3 Consensus size: 18
4914162 ATTTTAATAG
4914172 TTTAATATTAAAT-TTAA
1 TTTAATATTAAATATTAA
* *
4914189 TTTAATATT-TATCTTAA
1 TTTAATATTAAATATTAA
*
4914206 --TAATATT--TTATTAA
1 TTTAATATTAAATATTAA
*
4914220 TTTAATATTAAAGTGATT-G
1 TTTAATATTAAA-T-ATTAA
4914239 TCTTAATATTAAAT-TTAA
1 T-TTAATATTAAATATTAA
*
4914257 --AAATA-T-AATATTAA
1 TTTAATATTAAATATTAA
4914271 TTTAATATTAAAGTGATTAA
1 TTTAATATTAAA-T-ATTAA
4914291 GTTTAAT
1 -TTTAAT
4914298 CATATTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 30
0.69 0.07 0.25
Matches are distributed among these distances:
13 3 0.04
14 10 0.12
15 11 0.13
16 13 0.15
17 16 0.19
18 2 0.02
19 4 0.05
20 19 0.23
21 6 0.07
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (18 bp):
TTTAATATTAAATATTAA
Found at i:4924183 original size:3 final size:3
Alignment explanation
Indices: 4924177--4924208 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4924167 ATTATTGAGT
*
4924177 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4924209 GTATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4924223 original size:9 final size:10
Alignment explanation
Indices: 4924161--4924222 Score: 65
Period size: 12 Copynumber: 5.9 Consensus size: 10
4924151 TCCTATCATT
4924161 TTATTTATTA
1 TTATTTATTA
4924171 TTGAGTTTATTA
1 TT-A-TTTATTA
4924183 TTA-TTATTA
1 TTATTTATTA
4924192 TTATTATCATTA
1 TTATT-T-ATTA
4924204 TTATTGTATT-
1 TTATT-TATTA
4924214 TTATTTATT
1 TTATTTATT
4924223 TATTTGTACC
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
9 13 0.28
10 8 0.17
11 6 0.13
12 19 0.41
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (10 bp):
TTATTTATTA
Found at i:4936907 original size:44 final size:44
Alignment explanation
Indices: 4936849--4937265 Score: 332
Period size: 44 Copynumber: 9.6 Consensus size: 44
4936839 AAAGAATTTC
* *
4936849 AGATCTTATCTCCCTGAGGTCACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * *
4936893 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
** * * * * * *
4936936 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * * * *
4936979 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * * * *
4937023 AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-CCAG
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * * * * *
4937067 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGA-ATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACA---G
*
4937111 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * *
4937155 AGATCTTATCTCCCTGAGATTACAGCGGAGCA-ATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
** * * * * * *
4937197 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
*
4937240 AGGATCTTATCTCTCTGAGGTTACAG
1 A-GATCTTATCTCCCTGAGGTTACAG
4937266 CAGAGTAGAT
Statistics
Matches: 298, Mismatches: 62, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
41 28 0.09
42 34 0.11
43 38 0.13
44 163 0.55
45 2 0.01
46 32 0.11
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
Found at i:4936965 original size:87 final size:87
Alignment explanation
Indices: 4936850--4937277 Score: 388
Period size: 87 Copynumber: 4.9 Consensus size: 87
4936840 AAGAATTTCA
* * * *
4936850 GATCTTATCTCCCTGAGGTCACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACCAGAGATCTTATCTCCCTGAGATTA
4936915 CAGCGGAGCAGATCGAAGACAC
66 CAGCGGAGCAGATCGAAGACAC
* * ** *
4936937 TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAAAGGATCTTATCTCCCTGA-AGT
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACCAGA-GATCTTATCTCCCTGAGA-T
* * ** * * *
4937000 TACAGTGGAGCGGATTAAAATAAAG
64 TACAGCGGAGCAGA-TCGAAGACAC
* * * * *
4937025 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG-CACCAG-G-TCTTATTTCCCTGAGATTA
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACCAGAGATCTTATCTCCCTGAGATTA
* * *
4937087 CAGTGGAACAGA-CTAAAGA-ATTTC
66 CAGCGGAGCAGATC-GAAGACA---C
* * *
4937111 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1 -GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACCAGAGATCTTATCTCCCTGAGATT
4937176 ACAGCGGAGCA-ATCGAAGACAC
65 ACAGCGGAGCAGATCGAAGACAC
* * ** * * *
4937198 TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAAAGGATCTTATCTCTCTGAGGTT
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACCAGA-GATCTTATCTCCCTGAGATT
* *
4937262 ACAGCAGAGTAGATCG
65 ACAGCGGAGCAGATCG
4937278 CATCAGGTCT
Statistics
Matches: 272, Mismatches: 52, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
83 1 0.00
84 4 0.01
85 30 0.11
86 65 0.24
87 97 0.36
88 41 0.15
89 6 0.02
90 28 0.10
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (87 bp):
GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACCAGAGATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATCGAAGACAC
Found at i:4937116 original size:131 final size:132
Alignment explanation
Indices: 4936803--4937196 Score: 462
Period size: 131 Copynumber: 3.0 Consensus size: 132
4936793 TCATTATAAA
*
4936803 AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
1 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
* * ** *
4936868 TCACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
66 TTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAG
4936933 AC
131 AC
** * * * * * **
4936935 ACTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGATCTTATCTCCCTG
1 A-GGTCTTATTTCCCTGAGA-TTACAGTGGAACAGACTAAAGAATTTCA-GATCTTATCTCCCTG
* * * *
4936996 AAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCCCTGA-AGTTACAGTAGAGCAGAT
63 AGGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAGA-TTACAGCAGAGCAGAT
* *
4937059 CGCA-CC
126 CGAAGAC
4937065 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
1 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
* ** *
4937130 TTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCA-ATCGAAG
66 TTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAG
4937194 AC
131 AC
4937196 A
1 A
4937197 CTATCCTATC
Statistics
Matches: 210, Mismatches: 40, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
129 25 0.12
130 18 0.09
131 131 0.62
132 12 0.06
133 24 0.11
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (132 bp):
AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
TTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAG
AC
Found at i:4937233 original size:217 final size:217
Alignment explanation
Indices: 4936893--4937317 Score: 586
Period size: 217 Copynumber: 2.0 Consensus size: 217
4936883 TTGAAGCCAG
**
4936893 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAAGATCCTATCTCCCTGAAGTTA
* * * * *
4936958 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
66 CAGCGGAGC-GAATAAAAGAAACGATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
*
4937023 AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTG-AGATTA
130 AGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATTTCCCTGAAGA-TA
4937087 CAGTGGAACAGACTAAAGAATTTC
194 CAGTGGAACAGACTAAAGAATTTC
* * * * *
4937111 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGAT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-AGATCCTATCTCCCTGAAG-T
** * *
4937175 TACAGCGGAGC-AATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
64 TACAGCGGAGCGAATAAAAGAAACGATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
* * * * *
4937239 AAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAGGTCTTATTTCCCTGAAGATG
129 AAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATTTCCCTGAAGATA
*
4937304 CAGTGGAATAGACT
194 CAGTGGAACAGACT
4937318 GAACACAACA
Statistics
Matches: 181, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
217 113 0.62
218 44 0.24
219 24 0.13
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (217 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAAGATCCTATCTCCCTGAAGTTA
CAGCGGAGCGAATAAAAGAAACGATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAA
GGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATTTCCCTGAAGATACA
GTGGAACAGACTAAAGAATTTC
Found at i:4937335 original size:262 final size:262
Alignment explanation
Indices: 4936805--4937275 Score: 836
Period size: 262 Copynumber: 1.8 Consensus size: 262
4936795 ATTATAAAAG
4936805 GTCTTATTCCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTC
1 GTCTTATTCCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTC
4936870 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC
66 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC
4936935 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGT
131 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGT
** * * *
4937000 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCACC
196 TACAGCAGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAAGATACAGTAGAACAGATCGCACC
*
4937065 AG
261 AA
* *
4937067 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTT
1 GTCTTATTCCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTC
4937132 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCA-ATCGAAGAC
66 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC
* *
4937196 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGT
131 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGT
*
4937261 TACAGCAGAGTAGAT
196 TACAGCAGAGCAGAT
4937276 CGCATCAGGT
Statistics
Matches: 201, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
261 83 0.41
262 118 0.59
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (262 bp):
GTCTTATTCCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTC
ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC
ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGT
TACAGCAGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAAGATACAGTAGAACAGATCGCACC
AA
Found at i:4938697 original size:3 final size:3
Alignment explanation
Indices: 4938691--4938722 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4938681 ATTATTGAGT
*
4938691 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4938723 GTATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4938737 original size:9 final size:10
Alignment explanation
Indices: 4938675--4938736 Score: 65
Period size: 12 Copynumber: 5.9 Consensus size: 10
4938665 TCCTATCATT
4938675 TTATTTATTA
1 TTATTTATTA
4938685 TTGAGTTTATTA
1 TT-A-TTTATTA
4938697 TTA-TTATTA
1 TTATTTATTA
4938706 TTATTATCATTA
1 TTATT-T-ATTA
4938718 TTATTGTATT-
1 TTATT-TATTA
4938728 TTATTTATT
1 TTATTTATT
4938737 TATTTGTACC
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
9 13 0.28
10 8 0.17
11 6 0.13
12 19 0.41
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (10 bp):
TTATTTATTA
Found at i:4941992 original size:16 final size:16
Alignment explanation
Indices: 4941971--4942001 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4941961 AGTTTGTTTT
*
4941971 TATAATATATAAATTA
1 TATAATATAAAAATTA
4941987 TATAATATAAAAATT
1 TATAATATAAAAATT
4942002 TTGAAAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAATATAAAAATTA
Found at i:4942380 original size:35 final size:34
Alignment explanation
Indices: 4942338--4942410 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
4942328 AATTACAACG
4942338 TTTTACAGGGAA-TCTCACTGTTCATTCTTGGGTTT-
1 TTTTACAGGGAACT-TCAC-GTTCATTCTT-GGTTTC
*
4942373 TTTTACAGGGAACTTTACGTTCATTCTTGGTTTC
1 TTTTACAGGGAACTTCACGTTCATTCTTGGTTTC
4942407 TTTT
1 TTTT
4942411 GGCAAGGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
33 5 0.14
34 14 0.40
35 15 0.43
36 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.49
Consensus pattern (34 bp):
TTTTACAGGGAACTTCACGTTCATTCTTGGTTTC
Found at i:4942400 original size:34 final size:35
Alignment explanation
Indices: 4942338--4942556 Score: 98
Period size: 37 Copynumber: 6.1 Consensus size: 35
4942328 AATTACAACG
4942338 TTTTACAGGGAATCTCACTGTTCATTCTTGGGTTT-
1 TTTTACAGGGAATCTCACTGTTCATTCTT-GGTTTC
*
4942373 TTTTACAGGGAA-CTTTAC-GTTCATTCTTGGTTTC
1 TTTTACAGGGAATC-TCACTGTTCATTCTTGGTTTC
* * * *
4942407 TTTTGGCAAGGAATCAT-TCTCGTTCATT-TCTGTCTTTGC
1 TTTT-ACAGGGAATC-TCACT-GTTCATTCT-TG-GTTT-C
* * * *
4942446 -TCTGCAGGGAATCTCATTATTCATTCTTGGTTGT-
1 TTTTACAGGGAATCTCACTGTTCATTCTTGGTT-TC
* * *
4942480 TTTTGGCAGGGAATCACTCTTGTTCATT-TCT-GTTT-
1 TTTT-ACAGGGAATCTCAC-TGTTCATTCT-TGGTTTC
* * *
4942515 TTGCTCTGCAGGGAATCTCACTATTCATTCTTGGTTGC
1 TT--T-TACAGGGAATCTCACTGTTCATTCTTGGTTTC
4942553 TTTT
1 TTTT
4942557 GGCATGGAAT
Statistics
Matches: 141, Mismatches: 21, Indels: 44
0.68 0.10 0.21
Matches are distributed among these distances:
33 5 0.04
34 15 0.11
35 30 0.21
36 37 0.26
37 45 0.32
38 8 0.06
39 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (35 bp):
TTTTACAGGGAATCTCACTGTTCATTCTTGGTTTC
Found at i:4942471 original size:73 final size:73
Alignment explanation
Indices: 4942392--4942606 Score: 315
Period size: 73 Copynumber: 2.9 Consensus size: 73
4942382 GAACTTTACG
* *
4942392 TTCATTCTTGGTTTCTTTTGGCAAGGAATCATTCTCGTTCATTTCTGTCTTTGCTCTGCAGGGAA
1 TTCATTCTTGGTTTCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGAA
*
4942457 TCTCATTA
66 TCTCACTA
* *
4942465 TTCATTCTTGGTTGT-TTTTGGCAGGGAATCACTCTTGTTCATTTCTGTTTTTGCTCTGCAGGGA
1 TTCATTCTTGGTT-TCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGA
4942529 ATCTCACTA
65 ATCTCACTA
* * * * * *
4942538 TTCATTCTTGGTTGCTTTTGGCATGGAATTACTCTTGTTCATTTTTGTCTTTGCTTTGTAGGGAA
1 TTCATTCTTGGTTTCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGAA
4942603 TCTC
66 TCTC
4942607 TCCTGTTTAT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
73 127 0.99
74 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.47
Consensus pattern (73 bp):
TTCATTCTTGGTTTCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGAA
TCTCACTA
Found at i:4942489 original size:36 final size:36
Alignment explanation
Indices: 4942449--4942566 Score: 111
Period size: 36 Copynumber: 3.2 Consensus size: 36
4942439 TCTTTGCTCT
4942449 GCAGGGAATCTCATTATTCATTCTTGGTTGTTTTTG
1 GCAGGGAATCTCATTATTCATTCTTGGTTGTTTTTG
*
4942485 GCAGGGAATCACTC-TTGTTCATT-TCT-GTT-TTTGCTCT-
1 GCAGGGAAT--CTCATTATTCATTCT-TGGTTGTTT--T-TG
* *
4942522 GCAGGGAATCTCACTATTCATTCTTGGTTGCTTTTG
1 GCAGGGAATCTCATTATTCATTCTTGGTTGTTTTTG
*
4942558 GCATGGAAT
1 GCAGGGAAT
4942567 TACTCTTGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
35 7 0.11
36 30 0.45
37 23 0.35
38 6 0.09
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (36 bp):
GCAGGGAATCTCATTATTCATTCTTGGTTGTTTTTG
Found at i:4942579 original size:37 final size:37
Alignment explanation
Indices: 4942391--4942580 Score: 117
Period size: 37 Copynumber: 5.2 Consensus size: 37
4942381 GGAACTTTAC
* * * * *
4942391 GTTCATTCTTGGTTTCTTTTGGCAAGGAATCATTCTC
1 GTTCATTCTTGGTTGCTTTTGGCAGGGAATTACTCTT
** *
4942428 GTTCATTTCTGTCTTTGC-TCT-GCAGGGAA-T-CTCATT
1 GTTCA-TTCT-TGGTTGCTTTTGGCAGGGAATTACTC-TT
* * *
4942464 ATTCATTCTTGGTTGTTTTTGGCAGGGAATCACTCTT
1 GTTCATTCTTGGTTGCTTTTGGCAGGGAATTACTCTT
** * *
4942501 GTTCATTTCTGTTTTTGC-TCT-GCAGGGAA-T-CTCACT
1 GTTCA-TTCT-TGGTTGCTTTTGGCAGGGAATTACTC-TT
* *
4942537 ATTCATTCTTGGTTGCTTTTGGCATGGAATTACTCTT
1 GTTCATTCTTGGTTGCTTTTGGCAGGGAATTACTCTT
4942574 GTTCATT
1 GTTCATT
4942581 TTTGTCTTTG
Statistics
Matches: 111, Mismatches: 28, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
34 9 0.08
35 17 0.15
36 25 0.23
37 34 0.31
38 18 0.16
39 8 0.07
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.46
Consensus pattern (37 bp):
GTTCATTCTTGGTTGCTTTTGGCAGGGAATTACTCTT
Found at i:4943032 original size:20 final size:20
Alignment explanation
Indices: 4942995--4943034 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4942985 ATTTATATAT
*
4942995 TATAAAAACATGATATAAAA
1 TATAAAAACATGAAATAAAA
**
4943015 TATAAAAAGTTGAAATAAAA
1 TATAAAAACATGAAATAAAA
4943035 CGAAATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
TATAAAAACATGAAATAAAA
Found at i:4943118 original size:17 final size:16
Alignment explanation
Indices: 4943089--4943154 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 16
4943079 ATAAATTCTG
4943089 AAAAA-TTATAAAATAT
1 AAAAATTTA-AAAATAT
*
4943105 ATAAATTCTAAAAA-AT
1 AAAAATT-TAAAAATAT
*
4943121 CAAAAAATTTTAAAAATGT
1 --AAAAA-TTTAAAAATAT
4943140 AAAAATTTAAAAATA
1 AAAAATTTAAAAATA
4943155 ATTGAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
16 15 0.38
17 10 0.25
18 12 0.30
19 3 0.08
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAAATTTAAAAATAT
Found at i:4943127 original size:26 final size:26
Alignment explanation
Indices: 4943074--4943128 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
4943064 AGATTCCAAC
* * *
4943074 AATATATAAATTCTGAAAAATTATAA
1 AATATATAAATTCTAAAAAATCAAAA
4943100 AATATATAAATTCTAAAAAATCAAAA
1 AATATATAAATTCTAAAAAATCAAAA
4943126 AAT
1 AAT
4943129 TTTAAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (26 bp):
AATATATAAATTCTAAAAAATCAAAA
Found at i:4943519 original size:144 final size:147
Alignment explanation
Indices: 4943294--4943659 Score: 621
Period size: 148 Copynumber: 2.5 Consensus size: 147
4943284 TCCAATCAAG
4943294 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
*
4943359 CTCACCGCATTTTAGTTTTCTTT-CCTTT-AAAGATTTAATATTGAAATA-TAAATATATTTTCT
66 CTCACCGCATTTTAGTTTTCTTTACCTTTGAAAGATTTAATATTAAAATAGTAAATATATTTTCT
*
4943421 TCCAAAAGAATAGCACT
131 TCCAAAAGAAGAGCACT
4943438 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
** *
4943503 CTCACCGCATTTTAGTTTTCTTTAATTTTTGAAAGATTTAATATTAAAATAGTAATTATATTTTC
66 CTCACCGCATTTTAGTTTTCTTT-ACCTTTGAAAGATTTAATATTAAAATAGTAAATATATTTTC
* *
4943568 TTCCCAAAGAAGAGTACT
130 TTCCAAAAGAAGAGCACT
*
4943586 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCACGTGTTCGATCCACG
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
*
4943651 TTCACCGCA
66 CTCACCGCA
4943660 AGATTTTTAG
Statistics
Matches: 209, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
144 88 0.42
146 3 0.01
147 19 0.09
148 99 0.47
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (147 bp):
TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
CTCACCGCATTTTAGTTTTCTTTACCTTTGAAAGATTTAATATTAAAATAGTAAATATATTTTCT
TCCAAAAGAAGAGCACT
Found at i:4944286 original size:21 final size:21
Alignment explanation
Indices: 4944240--4944286 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
4944230 ATAATATAAT
*
4944240 ATAAAAATTATAAAAAGATGAT
1 ATAAAAATTAT-AAAAGATGAA
*
4944262 ATAAAATATTAT-AAAGTTGAA
1 ATAAAA-ATTATAAAAGATGAA
4944283 ATAA
1 ATAA
4944287 TAAAACGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 11 0.50
22 6 0.27
23 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
ATAAAAATTATAAAAGATGAA
Found at i:4952485 original size:98 final size:99
Alignment explanation
Indices: 4952313--4952504 Score: 251
Period size: 98 Copynumber: 1.9 Consensus size: 99
4952303 AAATTCCTTT
* ** * * *
4952313 GTGAATTCTCATTTTTGAGAGTAAGGTTGATTTAGGTGGATTTGAAATAAAGAAATAACCTAAGG
1 GTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAGG
*** * * *
4952378 TTGCGTGGTTTGCTAGAC-TTAAGTTCTAATCCC
66 CCACATGGTTTACCAGACTTTAAGTTCTAATCCC
* *
4952411 GTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGGTGGATTTGAAGCAAAGAAATCACCTAAGG
1 GTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAGG
4952476 CCACATGGTTTACCAGACTTTAAGTTCTA
66 CCACATGGTTTACCAGACTTTAAGTTCTA
4952505 GCAAAACAAC
Statistics
Matches: 79, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
98 69 0.87
99 10 0.13
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (99 bp):
GTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAGG
CCACATGGTTTACCAGACTTTAAGTTCTAATCCC
Found at i:4958766 original size:25 final size:25
Alignment explanation
Indices: 4958738--4958788 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
4958728 TGCAATGAGT
*
4958738 TAAAATCTAAGTCGAACAATTTACG
1 TAAAATCTAAGTCAAACAATTTACG
4958763 TAAAATCTAAGTCAAACAATTTACG
1 TAAAATCTAAGTCAAACAATTTACG
4958788 T
1 T
4958789 TTTGGTCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (25 bp):
TAAAATCTAAGTCAAACAATTTACG
Found at i:4961528 original size:5 final size:5
Alignment explanation
Indices: 4961520--4961547 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4961510 TAAGAAAATA
4961520 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
4961548 ATAATTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:4961554 original size:15 final size:14
Alignment explanation
Indices: 4961517--4961555 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
4961507 AAATAAGAAA
4961517 ATATATTTTATTTT
1 ATATATTTTATTTT
*
4961531 ATTTTATTTTATTTT
1 A-TATATTTTATTTT
4961546 ATATAATTTT
1 ATAT-ATTTT
4961556 GATATCTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:4963916 original size:21 final size:21
Alignment explanation
Indices: 4963868--4963918 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
4963858 GCCCGATCAT
*
4963868 ATTAT-TTTTAAATTTATATG
1 ATTATATTTTAAATTTATATA
4963888 A-TATTATTTTAATATTTA-ATA
1 ATTA-TATTTTAA-ATTTATATA
4963909 ATTATATTTT
1 ATTATATTTT
4963919 TTATTTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 2 0.08
21 15 0.58
22 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTATATTTTAAATTTATATA
Found at i:4966650 original size:31 final size:31
Alignment explanation
Indices: 4966615--4966674 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
4966605 TTGTTTAGCT
4966615 ATATGCTCTGTTCATTCAATAAAATATGAAA
1 ATATGCTCTGTTCATTCAATAAAATATGAAA
4966646 ATATGCTCTGTTCATTCAATAAAATATGA
1 ATATGCTCTGTTCATTCAATAAAATATGA
4966675 TTTCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (31 bp):
ATATGCTCTGTTCATTCAATAAAATATGAAA
Found at i:4968435 original size:2 final size:2
Alignment explanation
Indices: 4968428--4968467 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4968418 CACTCTAAAT
4968428 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4968468 TATATTTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4969572 original size:85 final size:83
Alignment explanation
Indices: 4969473--4969627 Score: 229
Period size: 85 Copynumber: 1.8 Consensus size: 83
4969463 TGGTGATGTG
** * *
4969473 AGAATTTTTACTTTTAGTGACGTTAAAAAGTGTCACAAAAAGATCACATTTTGTAATGTTCTAAA
1 AGAATTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAA-AGCACATTTTGTAATGTTCTAAA
4969538 GCGTCATGAATTTTTTTTT
65 GCGTCATGAATTTTTTTTT
* *
4969557 AGAATTTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAAGCACATTTTGTGATGTTTTAAA
1 AGAA-TTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAAGCACATTTTGTAATGTTCTAAA
*
4969622 GTGTCA
65 GCGTCA
4969628 CGAAAATTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
84 29 0.46
85 34 0.54
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.39
Consensus pattern (83 bp):
AGAATTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAAGCACATTTTGTAATGTTCTAAAG
CGTCATGAATTTTTTTTT
Found at i:4969638 original size:85 final size:84
Alignment explanation
Indices: 4969473--4969639 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
4969463 TGGTGATGTG
** * *
4969473 AGAATTTTTACTTTTAGTGACGTTAAAAAGTGTCACAAAAAGATCACATTTTGTAATGTTCTAAA
1 AGAATTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAGAGCACATTTTGTAATGTTCTAAA
* *
4969538 GCGTCATGAATTTTTTTTT
66 GCGTCACGAAATTTTTTTT
* *
4969557 AGAATTTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAA-AGCACATTTTGTGATGTTTTAA
1 AGAA-TTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAGAGCACATTTTGTAATGTTCTAA
* *
4969621 AGTGTCACGAAAATTTTTT
65 AGCGTCACGAAATTTTTTT
4969640 CATTACTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 38 0.53
85 34 0.47
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (84 bp):
AGAATTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAGAGCACATTTTGTAATGTTCTAAA
GCGTCACGAAATTTTTTTT
Found at i:4972086 original size:5 final size:6
Alignment explanation
Indices: 4972058--4972093 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
4972048 CGTAAATAAG
* *
4972058 CAAAAA CATAAC CAAAAA CAAAAA CAAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
4972094 GAAACTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.78, C:0.19, G:0.00, T:0.03
Consensus pattern (6 bp):
CAAAAA
Found at i:4974725 original size:15 final size:15
Alignment explanation
Indices: 4974705--4974734 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4974695 TTTTTCTTTC
*
4974705 AAAAAAGTTCAAAAA
1 AAAAAAGTCCAAAAA
4974720 AAAAAAGTCCAAAAA
1 AAAAAAGTCCAAAAA
4974735 GTCAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAAAGTCCAAAAA
Found at i:4980678 original size:105 final size:104
Alignment explanation
Indices: 4980529--4980721 Score: 291
Period size: 105 Copynumber: 1.8 Consensus size: 104
4980519 TCCTCATTGA
*
4980529 AATACCATACCTACATTTTATACTCGGTATGGAAAATACCATACCTACGTTTCACAACTCGGTAT
1 AATACCATACCTACATTTTATACTCGGTATGGAAAATACCATACCTACATTTCACAACTCGGTAT
*
4980594 GGGA-AATGCCATACCTACATTTCTTAACTCAGTATGGAT
66 -GGATAATACCATACCTACATTTCTTAACTCAGTATGGAT
* ** *
4980633 AATACCATACCTATATTTCTCA-ACTCGGTATGGATGATATCATACCTACATTTCACAACTCGGT
1 AATACCATACCTACATTT-T-ATACTCGGTATGGAAAATACCATACCTACATTTCACAACTCGGT
4980697 ATGGATAATACCATACCTACATTTC
64 ATGGATAATACCATACCTACATTTC
4980722 GCACTTTGCC
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
104 20 0.25
105 59 0.74
106 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (104 bp):
AATACCATACCTACATTTTATACTCGGTATGGAAAATACCATACCTACATTTCACAACTCGGTAT
GGATAATACCATACCTACATTTCTTAACTCAGTATGGAT
Found at i:4980737 original size:35 final size:35
Alignment explanation
Indices: 4980529--4980721 Score: 255
Period size: 35 Copynumber: 5.5 Consensus size: 35
4980519 TCCTCATTGA
* * *
4980529 AATACCATACCTACATTTTA-TACTCGGTATGGAA
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
*
4980563 AATACCATACCTACGTTTCACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCGGTAT-GGAT
* ** *
4980598 AATGCCATACCTACATTTCTTAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
4980633 AATACCATACCTATATTTCTCAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
4980668 GATATCATACCTACATTTCACAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
4980703 AATACCATACCTACATTTC
1 AATACCATACCTACATTTC
4980722 GCACTTTGCC
Statistics
Matches: 138, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
34 21 0.15
35 114 0.83
36 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCGGTATGGAT
Found at i:4994654 original size:21 final size:21
Alignment explanation
Indices: 4994630--4994696 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
4994620 TAAAACTATT
4994630 TAAAGAATCGACTATATTACC
1 TAAAGAATCGACTATATTACC
* * * * **
4994651 TAAAAAAATCCAC-AAACTATT
1 T-AAAGAATCGACTATATTACC
4994672 TAAAGAATCGACTATATTACC
1 TAAAGAATCGACTATATTACC
4994693 TAAA
1 TAAA
4994697 AAAATCCACT
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 9 0.28
21 14 0.44
22 9 0.28
ACGTcount: A:0.49, C:0.18, G:0.06, T:0.27
Consensus pattern (21 bp):
TAAAGAATCGACTATATTACC
Found at i:4994660 original size:22 final size:22
Alignment explanation
Indices: 4994635--4994702 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
4994625 CTATTTAAAG
4994635 AATCGACTATATTACCTAAAAA
1 AATCGACTATATTACCTAAAAA
* * * * * *
4994657 AATCCAC-AAACTA-TTTAAAG
1 AATCGACTATATTACCTAAAAA
4994677 AATCGACTATATTACCTAAAAA
1 AATCGACTATATTACCTAAAAA
4994699 AATC
1 AATC
4994703 CACTTTTCTT
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 10 0.31
21 8 0.25
22 14 0.44
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.26
Consensus pattern (22 bp):
AATCGACTATATTACCTAAAAA
Found at i:4994681 original size:42 final size:42
Alignment explanation
Indices: 4994622--4994705 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4994612 AGAAGAAGTA
4994622 AAACTATTTAAAGAATCGACTATATTACCTAAAAAAATCCAC
1 AAACTATTTAAAGAATCGACTATATTACCTAAAAAAATCCAC
4994664 AAACTATTTAAAGAATCGACTATATTACCTAAAAAAATCCAC
1 AAACTATTTAAAGAATCGACTATATTACCTAAAAAAATCCAC
4994706 TTTTCTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (42 bp):
AAACTATTTAAAGAATCGACTATATTACCTAAAAAAATCCAC
Found at i:4995184 original size:38 final size:38
Alignment explanation
Indices: 4995137--4995214 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
4995127 ACTTTCGTTT
*
4995137 CAACTTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
1 CAACCTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
4995175 CAACCTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
1 CAACCTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
4995213 CA
1 CA
4995215 GACTTATTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (38 bp):
CAACCTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
Found at i:4995537 original size:6 final size:6
Alignment explanation
Indices: 4995526--4995554 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4995516 TTGGTTCCAT
4995526 ATAAAA ATAAAA ATAAAA AT-AAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
4995555 CAAAACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:5004020 original size:29 final size:29
Alignment explanation
Indices: 5003978--5004037 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
5003968 ATTGGCTGGT
5003978 GGGTTGGATTCCAAAGATAGAAAAATAAA
1 GGGTTGGATTCCAAAGATAGAAAAATAAA
* *
5004007 GGGTTGGATTCCAATGATGGAAAAATAAA
1 GGGTTGGATTCCAAAGATAGAAAAATAAA
5004036 GG
1 GG
5004038 ATCATTGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.07, G:0.28, T:0.22
Consensus pattern (29 bp):
GGGTTGGATTCCAAAGATAGAAAAATAAA
Found at i:5011561 original size:28 final size:31
Alignment explanation
Indices: 5011507--5011570 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 31
5011497 CAAAAATTAG
* * *
5011507 TTTATTATTAATAAAGACGTAAGTTAATTTA
1 TTTATTATTAATAAAGACATAAATTAATATA
5011538 TTTATT-TTAATAAA-A-ATAAATTAATATA
1 TTTATTATTAATAAAGACATAAATTAATATA
5011566 TTTAT
1 TTTAT
5011571 ATCAAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 15 0.50
29 1 0.03
30 8 0.27
31 6 0.20
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTATTATTAATAAAGACATAAATTAATATA
Found at i:5015952 original size:19 final size:21
Alignment explanation
Indices: 5015928--5015967 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
5015918 CATGGTAGAG
5015928 AAAAAGTAAC-TTCT-AAAAA
1 AAAAAGTAACATTCTCAAAAA
*
5015947 AAAAAGTTACATTCTCAAAAA
1 AAAAAGTAACATTCTCAAAAA
5015968 TTTTCCGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAAAGTAACATTCTCAAAAA
Found at i:5024327 original size:25 final size:25
Alignment explanation
Indices: 5024298--5024352 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
5024288 ATGCATTGAG
* *
5024298 ATATATACGTAATAATAGAAATAAA
1 ATATATACGTAATAATAAAAAGAAA
* *
5024323 ATATATACGTAGTATTAAAAAGAAA
1 ATATATACGTAATAATAAAAAGAAA
5024348 ATATA
1 ATATA
5024353 CATAATATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (25 bp):
ATATATACGTAATAATAAAAAGAAA
Found at i:5024388 original size:11 final size:9
Alignment explanation
Indices: 5024347--5024438 Score: 50
Period size: 9 Copynumber: 10.1 Consensus size: 9
5024337 TTAAAAAGAA
*
5024347 AATATACAT
1 AATATATAT
*
5024356 AATATACAT
1 AATATATAT
5024365 -ATATATAT
1 AATATATAT
5024373 AATATATAT
1 AATATATAT
*
5024382 GAGATAT-TAA
1 -A-ATATATAT
*
5024392 AATGTATAT
1 AATATATAT
*
5024401 ACGTGATATAT
1 A-AT-ATATAT
5024412 -ATATATAT
1 AATATATAT
5024420 GAA-ATATAT
1 -AATATATAT
5024429 ACATA-ATAT
1 A-ATATATAT
5024438 A
1 A
5024439 GTTATTGAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
8 17 0.26
9 34 0.52
10 6 0.09
11 9 0.14
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (9 bp):
AATATATAT
Found at i:5026923 original size:51 final size:51
Alignment explanation
Indices: 5026847--5026949 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
5026837 AGGGAGTCAA
5026847 TGTTTGTATCTTCCATTGAGACGAACTTTATAGTTTTCAACAGCTAAAGTC
1 TGTTTGTATCTTCCATTGAGACGAACTTTATAGTTTTCAACAGCTAAAGTC
*
5026898 TGTTTGTATCTTCCATTGAGACGAACTTTATAGTTTTCAACAGCTATAGTC
1 TGTTTGTATCTTCCATTGAGACGAACTTTATAGTTTTCAACAGCTAAAGTC
5026949 T
1 T
5026950 TTGGAAGTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (51 bp):
TGTTTGTATCTTCCATTGAGACGAACTTTATAGTTTTCAACAGCTAAAGTC
Done.