Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 269 of 438
Found at i:83611247 original size:43 final size:42
Alignment explanation
Indices: 83611137--83611257 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
83611127 TTACCGAATG
*
83611137 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATA
1 TGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGATATA
* * *
83611180 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATA
1 TGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGATATA
* * * * *
83611223 TGATAACATGTAAGGCTATATCTGGGATATGGCAT
1 TGATTACATGTAAGACCATGTCTGGGACATGGCAT
83611258 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 6 0.09
43 59 0.91
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATGGCATCGATATA
Found at i:83613501 original size:40 final size:39
Alignment explanation
Indices: 83613451--83613632 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
83613441 AGCACTCGTT
* * * *
83613451 CAAATACCTTCGGGACATGGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
*
83613491 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* *
83613531 CAAATGCCTTC-GGATCTTAGTCCGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTTAGTAACTCGCA
* * * *
83613570 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCA
83613611 CAAA-GCCTTC-GGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
83613633 AACATCATTC
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 49 0.39
40 66 0.53
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:83613569 original size:39 final size:39
Alignment explanation
Indices: 83613479--83613628 Score: 198
Period size: 39 Copynumber: 3.8 Consensus size: 39
83613469 GGCCCGGTTA
*
83613479 TAGTAGCTCGCACAAATGCCTTCGGGACTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGACTTAGT-CCGGATT
83613519 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC-GATT
1 TAGTAACTCGCACAAATGCCTTCGGA-CTTAGTCCGGATT
*
83613558 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGA-CTTAGTCCGGATT
* *
83613598 TAGTCACTTAGCACAAA-GCCTTCGGACTTAG
1 TAGTAAC-TCGCACAAATGCCTTCGGACTTAG
83613629 CCCGAACATC
Statistics
Matches: 102, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
39 47 0.46
40 46 0.45
41 9 0.09
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGACTTAGTCCGGATT
Found at i:83613569 original size:79 final size:78
Alignment explanation
Indices: 83613470--83613633 Score: 208
Period size: 79 Copynumber: 2.1 Consensus size: 78
83613460 TCGGGACATG
* * * *
83613470 GCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATTTAGTAAC-TCGCAC
1 GCCCGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATATAGTAACTTAGCAC
83613532 AAATGCCTTCGGATCTTA
63 AAA-GCCTTCGGA-CTTA
* *
83613550 GTCCGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA
1 GCCCGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTTAGCACAAA
83613615 GCCTTCGGACTTA
66 GCCTTCGGACTTA
83613628 GCCCGA
1 GCCCGA
83613634 ACATCATTCG
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
78 12 0.16
79 47 0.64
80 15 0.20
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (78 bp):
GCCCGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTTAGCACAAA
GCCTTCGGACTTA
Found at i:83645204 original size:39 final size:39
Alignment explanation
Indices: 83644892--83645201 Score: 523
Period size: 39 Copynumber: 8.0 Consensus size: 39
83644882 ATTATATTAT
* * *
83644892 CAGCACAAAGCCTGCGGTACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
83644931 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
83644970 CAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
83645009 TAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
83645048 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
83645087 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
83645126 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
83645165 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATA-ATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
83645202 TCCGATGTCT
Statistics
Matches: 254, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
38 4 0.02
39 250 0.98
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:83645354 original size:35 final size:35
Alignment explanation
Indices: 83645315--83645388 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
83645305 ACCTTTTAAC
83645315 TCTTGGTTCAATAATCATACACAAGGAACACATAA
1 TCTTGGTTCAATAATCATACACAAGGAACACATAA
83645350 TCTTGGTTCAATAATCATACACAAGGAACACATAA
1 TCTTGGTTCAATAATCATACACAAGGAACACATAA
83645385 TCTT
1 TCTT
83645389 TTCATTATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (35 bp):
TCTTGGTTCAATAATCATACACAAGGAACACATAA
Found at i:83653388 original size:28 final size:29
Alignment explanation
Indices: 83653289--83653387 Score: 150
Period size: 28 Copynumber: 3.5 Consensus size: 29
83653279 AATGAGATTG
83653289 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
83653317 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
* *
83653346 GCACTAAGTGTGCGGGTTTGAGTAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
83653374 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
83653388 GACTTACTGT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
28 34 0.51
29 32 0.48
30 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:83661110 original size:27 final size:29
Alignment explanation
Indices: 83661012--83661109 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
83661002 AATGAGATTG
83661012 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
83661040 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
83661069 GCACTAAGTGTGCG-GTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
83661096 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
83661110 GACTTACTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.22
28 29 0.43
29 24 0.35
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:83666460 original size:43 final size:42
Alignment explanation
Indices: 83666398--83666507 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
83666388 CAATACCAAC
83666398 GTCCCAGAC-GTGGTCTTACATGTAATCAAACATCGATGC-CACT
1 GTCCCAGACAG-GGTCTTACATGTAATCAAACA-CGATGCTCA-T
* * * * *
83666441 TTCCCAGACAGGGTCTTACATGAAATCAGATACGATGCTGAT
1 GTCCCAGACAGGGTCTTACATGTAATCAAACACGATGCTCAT
* *
83666483 GTCCCAGACATGGTCTTACACGTAA
1 GTCCCAGACAGGGTCTTACATGTAA
83666508 AACAGAAGTC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 28 0.50
43 27 0.48
44 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCAAACACGATGCTCAT
Found at i:83666490 original size:42 final size:43
Alignment explanation
Indices: 83666398--83666502 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
83666388 CAATACCAAC
*
83666398 GTCCCAGAC-GTGGTCTTACATGTAATCAAACATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACATGAAATCAAACATCGATGCCACT
* * * *
83666441 TTCCCAGACAGGGTCTTACATGAAATCAGATA-CGATGCTGA-T
1 GTCCCAGACAGGGTCTTACATGAAATCAAACATCGATGC-CACT
*
83666483 GTCCCAGACATGGTCTTACA
1 GTCCCAGACAGGGTCTTACA
83666503 CGTAAAACAG
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 25 0.47
43 27 0.51
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACATGAAATCAAACATCGATGCCACT
Found at i:83672668 original size:79 final size:79
Alignment explanation
Indices: 83672537--83672693 Score: 305
Period size: 79 Copynumber: 2.0 Consensus size: 79
83672527 ATTTTCTACC
*
83672537 ATAAATTTTAAATTTTTAGCATATACATCTGTGACCTAATTTTCATACTTTAATAACTCTTCAAA
1 ATAAATTTTAAATTTTTAGCATATACATCTATGACCTAATTTTCATACTTTAATAACTCTTCAAA
83672602 TTGATCCCCCAAAA
66 TTGATCCCCCAAAA
83672616 ATAAATTTTAAATTTTTAGCATATACATCTATGACCTAATTTTCATACTTTAATAACTCTTCAAA
1 ATAAATTTTAAATTTTTAGCATATACATCTATGACCTAATTTTCATACTTTAATAACTCTTCAAA
83672681 TTGATCCCCCAAA
66 TTGATCCCCCAAA
83672694 TAGATAGGTT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.39
Consensus pattern (79 bp):
ATAAATTTTAAATTTTTAGCATATACATCTATGACCTAATTTTCATACTTTAATAACTCTTCAAA
TTGATCCCCCAAAA
Found at i:83675796 original size:43 final size:44
Alignment explanation
Indices: 83675748--83675868 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 44
83675738 ATCGAGATGT
* *
83675748 GATTACATGTAACACCATGTCTGGGACATTGGCATT-GTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTCGTATTGA
* * *
83675791 GATTACGTGTAAGACCATGTTTGAGACATTGGC-TTCGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTCGTATTGA
* * * *
83675834 GATTTCGTGTAAGACCCTCTCTGGGACAGTGGCAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT
83675869 CGATATGTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.03
43 62 0.95
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTCGTATTGA
Found at i:83680445 original size:38 final size:38
Alignment explanation
Indices: 83680403--83680503 Score: 157
Period size: 38 Copynumber: 2.7 Consensus size: 38
83680393 TAAAGGTCCG
*
83680403 CAGGCTTCGTGCTGGTATCATATTCGGGTTAAATCCCA
1 CAGGCTTCGTGCTGGTATTATATTCGGGTTAAATCCCA
* *
83680441 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATTCGGGTTAAATCCCA
* *
83680479 CAGGATTAGTGCTGGTATTATATTC
1 CAGGCTTCGTGCTGGTATTATATTC
83680504 AAGCTTAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTATTATATTCGGGTTAAATCCCA
Found at i:83681843 original size:18 final size:20
Alignment explanation
Indices: 83681806--83681844 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
83681796 AACTGATTGA
*
83681806 ATGATTGATGGTTTTCAAAT
1 ATGATTGATGGTTTTAAAAT
83681826 ATGATT-AT-GTTTTAAAAT
1 ATGATTGATGGTTTTAAAAT
83681844 A
1 A
83681845 ATATATGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (20 bp):
ATGATTGATGGTTTTAAAAT
Found at i:83683766 original size:43 final size:43
Alignment explanation
Indices: 83683716--83683872 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
83683706 TATGTGTTCT
83683716 CGTGTAAGACCACGTCTAGGACATTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTAGGACATTGGCATCGATATGTGATTA
* * *
83683759 CGTGTAAGACCATGTCTAGGACATCGGCATCG-TATTTGATT-
1 CGTGTAAGACCACGTCTAGGACATTGGCATCGATATGTGATTA
* * ** *
83683800 CGTGTAAGACC-CTGTCTGGGATAGGGGCATCCATATGTGA-TA
1 CGTGTAAGACCAC-GTCTAGGACATTGGCATCGATATGTGATTA
* * * *
83683842 GCATGTAAGACCACATCTGGGACGTTGGCAT
1 -CGTGTAAGACCACGTCTAGGACATTGGCAT
83683873 TGTACGATAT
Statistics
Matches: 93, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
41 26 0.28
42 14 0.15
43 52 0.56
44 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACATTGGCATCGATATGTGATTA
Found at i:83686382 original size:41 final size:41
Alignment explanation
Indices: 83686337--83686419 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
83686327 TATTTGCGTG
*
83686337 TTTGATGAGCTATCTTGTACCCCGGATGAGTGCTTGAAATA
1 TTTGATGAGCTATCTTGTACCCCGGATGAGTACTTGAAATA
83686378 TTTGATGAGCTATCTTGTACCCCGGATGAGTACTTGAAATA
1 TTTGATGAGCTATCTTGTACCCCGGATGAGTACTTGAAATA
83686419 T
1 T
83686420 GCCATATGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTGATGAGCTATCTTGTACCCCGGATGAGTACTTGAAATA
Found at i:83689670 original size:40 final size:40
Alignment explanation
Indices: 83689577--83689833 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
83689567 AAGCCAAGTA
* * *
83689577 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
83689615 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
83689655 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
83689695 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
83689735 CCTTCGGGACTTAGCCTGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
83689775 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
83689815 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
83689834 TTATCATCCG
Statistics
Matches: 196, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
38 12 0.06
39 18 0.09
40 166 0.85
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:83692509 original size:30 final size:30
Alignment explanation
Indices: 83692475--83692535 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
83692465 TCCTTAAATC
83692475 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
83692505 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
83692535 A
1 A
83692536 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:83694299 original size:29 final size:29
Alignment explanation
Indices: 83694209--83694368 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
83694199 ACTCGATTTC
* * **
83694209 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
83694238 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
83694266 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
83694296 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
83694325 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
83694354 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
83694369 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:83702329 original size:29 final size:29
Alignment explanation
Indices: 83702239--83702398 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
83702229 ACTCGATTTC
* * **
83702239 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
83702268 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
83702296 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
83702326 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
83702355 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
83702384 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
83702399 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:83706475 original size:47 final size:46
Alignment explanation
Indices: 83706357--83706530 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
83706347 TAGGATGGTT
*
83706357 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
83706404 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
83706449 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
83706497 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
83706531 TATGGGCGGG
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 32 0.30
46 30 0.28
47 31 0.29
48 5 0.05
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:83706526 original size:46 final size:46
Alignment explanation
Indices: 83706362--83706535 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
83706352 TGGTTGGCAT
* *
83706362 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
83706407 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
83706452 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
83706500 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83706536 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:83709459 original size:15 final size:15
Alignment explanation
Indices: 83709439--83709507 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
83709429 GTATCTTGGG
83709439 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
83709454 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
83709469 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
83709484 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
83709499 TTTCTTTAT
1 TTTCTTTAT
83709508 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:83709508 original size:30 final size:30
Alignment explanation
Indices: 83709430--83709517 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
83709420 CATAGTATCG
* * * *
83709430 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
83709460 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
83709490 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
83709518 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:83711927 original size:46 final size:46
Alignment explanation
Indices: 83711877--83712052 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
83711867 GGTTTGAGCA
83711877 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
83711923 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
83711968 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
83712016 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83712053 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:83712033 original size:93 final size:93
Alignment explanation
Indices: 83711874--83712044 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
83711864 GATGGTTTGA
* *
83711874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
83711939 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
83711967 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
83712032 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
83712045 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:83714988 original size:15 final size:15
Alignment explanation
Indices: 83714968--83715036 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
83714958 GTATCTTGGG
83714968 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
83714983 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
83714998 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
83715013 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
83715028 TTTCTTTAT
1 TTTCTTTAT
83715037 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:83715037 original size:30 final size:30
Alignment explanation
Indices: 83714959--83715046 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
83714949 CATAGTATCG
* * * *
83714959 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
83714989 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
83715019 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
83715047 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:83717475 original size:46 final size:46
Alignment explanation
Indices: 83717425--83717600 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
83717415 TGGTTGAGCA
83717425 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
83717471 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
83717516 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
83717564 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83717601 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:83717581 original size:93 final size:93
Alignment explanation
Indices: 83717422--83717592 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
83717412 GGATGGTTGA
* *
83717422 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
83717487 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
83717515 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
83717580 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
83717593 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:83720363 original size:40 final size:40
Alignment explanation
Indices: 83720319--83720483 Score: 269
Period size: 40 Copynumber: 4.2 Consensus size: 40
83720309 TAGTGACTAC
83720319 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* *
83720359 ATCCGGGCTAAGACCCGAATGCATTCGTGCAAGTTGTT-A
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
*
83720398 ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * *
83720438 ATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
83720478 ATCCGG
1 ATCCGG
83720484 TTGTATTCCG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 36 0.31
40 79 0.69
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
Found at i:83720375 original size:80 final size:79
Alignment explanation
Indices: 83720239--83720468 Score: 266
Period size: 79 Copynumber: 2.9 Consensus size: 79
83720229 ATTGAATGAT
* * ** * ** * * * *
83720239 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGAGTTAAAACCCGAAGGTAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGG-AAT
*
83720304 T-GTGCTAG-TGACTA
65 TCGTGCAAGTTG-CTA
* *
83720318 CATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAATGCAT
1 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGAAT
*
83720383 TCGTGCAAGTTGTTA
65 TCGTGCAAGTTGCTA
* *
83720398 ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGAATT
83720463 CGTGCA
66 CGTGCA
83720469 CGTGGTTATA
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 72 0.55
80 57 0.44
81 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (79 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGAATT
CGTGCAAGTTGCTA
Found at i:83720419 original size:79 final size:80
Alignment explanation
Indices: 83720319--83720483 Score: 287
Period size: 79 Copynumber: 2.1 Consensus size: 80
83720309 TAGTGACTAC
* *
83720319 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAATGCATT
1 ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
*
83720384 CGTGCAAGTTGTTA-
66 CGTGCAAGTGGTTAT
83720398 ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
*
83720463 CGTGCACGTGGTTAT
66 CGTGCAAGTGGTTAT
83720478 ATCCGG
1 ATCCGG
83720484 TTGTATTCCG
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 75 0.93
80 6 0.07
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTAT
Found at i:83723344 original size:40 final size:40
Alignment explanation
Indices: 83723300--83723396 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
83723290 TGACTATTTG
83723300 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
* * * *
83723340 TGGCACTTAGTCTGCGATTTGAGATAGCTTCGGCTGTGTA
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
* *
83723380 CGACACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
83723397 GATATTGAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
Found at i:83723453 original size:30 final size:28
Alignment explanation
Indices: 83723384--83723464 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
83723374 TGTGTACGAC
* *
83723384 ACTTAGTGTGCGAGATATTGAGTGTGGA
1 ACTTAGTGTGAGAGATATTGAGTATGGA
83723412 ACTTAGTGTGAGAGATATTGAGTATGGA
1 ACTTAGTGTGAGAGATATTGAGTATGGA
* **
83723440 ACTTAGTGTGTGAGGCATTGAGTAT
1 ACTTAGTGTGAGAGATATTGAGTAT
83723465 TCAACGACAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.27, C:0.06, G:0.33, T:0.33
Consensus pattern (28 bp):
ACTTAGTGTGAGAGATATTGAGTATGGA
Found at i:83726362 original size:40 final size:40
Alignment explanation
Indices: 83726318--83726468 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
83726308 AGATATAGCT
* *
83726318 ACTCGCTCAAATGCCTTCGGGACATAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTA
*
83726358 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GATTATAGTA
* * *
83726398 ACTCGCACCAATG-CTTC-GGATCTTAGTCCGGA-TATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAG-CCCGATTATAGTA
* * *
83726437 ACTTAGCGCAAAAGCCTTCGGGACTTAGCCCG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCG
83726469 GATATCATTC
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 4 0.04
39 16 0.17
40 56 0.61
41 13 0.14
42 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTA
Found at i:83727123 original size:38 final size:38
Alignment explanation
Indices: 83727072--83727161 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
83727062 TACCTATGGT
83727072 CGAACATACACATCAACTTATGTACTCATTCATGTGGC
1 CGAACATACACATCAACTTATGTACTCATTCATGTGGC
83727110 CGAACATACACATCAACTTATGTACTCATTCATGTGGC
1 CGAACATACACATCAACTTATGTACTCATTCATGTGGC
*
83727148 CAAACATACACATC
1 CGAACATACACATC
83727162 TATGCTAAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (38 bp):
CGAACATACACATCAACTTATGTACTCATTCATGTGGC
Found at i:83732876 original size:6 final size:6
Alignment explanation
Indices: 83732858--83732954 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
83732848 AAGAAACATT
* * *
83732858 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
83732907 ACCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
83732955 GTAATAGAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
5 4 0.06
6 58 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:83732913 original size:31 final size:31
Alignment explanation
Indices: 83732867--83732964 Score: 124
Period size: 31 Copynumber: 3.2 Consensus size: 31
83732857 TATCAGAACT
* *
83732867 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
83732898 AGAATTAGAACCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
83732929 AGAATCAAAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
83732960 AGAAT
1 AGAAT
83732965 AAAAAATCAG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:83733156 original size:27 final size:26
Alignment explanation
Indices: 83733114--83733215 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
83733104 GCTCAGTTAT
* *
83733114 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
83733141 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
83733167 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
83733195 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
83733216 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:83733921 original size:27 final size:27
Alignment explanation
Indices: 83733882--83734220 Score: 489
Period size: 27 Copynumber: 12.6 Consensus size: 27
83733872 TACCCCACAA
* *
83733882 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
83733909 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
83733936 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
83733963 GGTATTGCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
83733990 GGTATTTCGGTAATTTTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
83734017 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
83734044 GGTATTTCGATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
83734071 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
83734098 GGTATTTTGGTAATTTTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
83734125 GGTATTGCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
83734152 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
83734179 GGTATTTCAGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
83734206 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
83734221 TCACAAATTA
Statistics
Matches: 277, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 277 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:83734290 original size:27 final size:26
Alignment explanation
Indices: 83734202--83734734 Score: 120
Period size: 27 Copynumber: 19.8 Consensus size: 26
83734192 TTCTACCCTA
* *
83734202 CAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTA-AAAT
* *
83734229 TAAGCGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTA-AAAT
* **
83734255 CCAGAGGTATTTTGGTAATTTTATTGAT
1 CAAG-GGTATTTTGGTAATTTTA-AAAT
*** *
83734283 CAAGGGTAAAATGGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTA-AAAT
* *** *
83734310 CGAGGGTAAAATGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTT-AAAAT
*****
83734337 CAAGGGTAAGACAGTAATTCTGT-AAAT
1 CAAGGGTATTTTGGTAATT-T-TAAAAT
* *** * ***
83734364 CGAGGGTAAAATGGTAATTCTATCTT
1 CAAGGGTATTTTGGTAATTTTAAAAT
* * **
83734390 ACATGAGTATTTCAGTAATTTTACAAAT
1 -CAAGGGTATTTTGGTAATTTTA-AAAT
* * ** *
83734418 CGAGGGCATTTCAGTAATTTTGCAAACT
1 CAAGGGTATTTTGGTAATTTT--AAAAT
* *
83734446 GAA-GGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTA-AAAT
* *
83734472 CAAGGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTA-AAAT
* * *
83734499 CAGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTA-AAAT
* **
83734526 CGAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTA-AAAT
* *** *
83734553 CGAGGGTATTTCAATAATTTTGCAAAT
1 CAAGGGTATTTTGGTAATTTT-AAAAT
** *** **
83734580 TGAGGGTATTTCAATAATTTTAACCT
1 CAAGGGTATTTTGGTAATTTTAAAAT
* ** * ***
83734606 ACAGGGGTATTTCAGTAATTCTACCCT
1 -CAAGGGTATTTTGGTAATTTTAAAAT
* * * **
83734633 ACAGGGGTATTTCGGTAATTCTACCCTAT
1 -CAAGGGTATTTTGGTAATTTTA--AAAT
* *
83734662 -AGGGGTATTTCGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTA-AAAT
** **
83734688 CAAGGGTATTTTACTAATTTTACAACC
1 CAAGGGTATTTTGGTAATTTTA-AAAT
*
83734715 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
83734735 GGTAAACTAA
Statistics
Matches: 390, Mismatches: 99, Indels: 34
0.75 0.19 0.07
Matches are distributed among these distances:
25 2 0.01
26 12 0.03
27 363 0.93
28 9 0.02
29 4 0.01
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (26 bp):
CAAGGGTATTTTGGTAATTTTAAAAT
Found at i:83734325 original size:54 final size:54
Alignment explanation
Indices: 83734267--83734382 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
83734257 AGAGGTATTT
** **
83734267 TGGTAATTTTATTGATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
* * *
83734321 TGGTAATTTTGTAAATCAAGGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
83734375 TGGTAATT
1 TGGTAATT
83734383 CTATCTTACA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (54 bp):
TGGTAATTTTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
Found at i:83734482 original size:81 final size:81
Alignment explanation
Indices: 83734397--83734601 Score: 227
Period size: 81 Copynumber: 2.5 Consensus size: 81
83734387 CTTACATGAG
* * *
83734397 TATTTCAGTAATTTTACAAATCGAGGGCATTTCAGTAATTTTGCAAACT-GAAGGTATTTCGGTA
1 TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AACTCGAAGGTATTTCAGTA
83734461 ATTTTACAAATCAAGGA
65 ATTTTACAAATCAAGGA
** * * * *
83734478 TATTTGGGTAATTTTATAAATC-AGGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAGT
1 TATTTCAGTAATTTTACAAATCGA-GGGTA-TTTCAGTAATTTTACAACTCGAAGGTATTTCAGT
* *
83734541 AATTTTACAAATCGAGGG
64 AATTTTACAAATCAAGGA
* * * *
83734559 TATTTCAATAATTTTGCAAATTGAGGGTATTTCAATAATTTTA
1 TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTA
83734602 ACCTACAGGG
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
80 7 0.07
81 89 0.89
82 4 0.04
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (81 bp):
TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAACTCGAAGGTATTTCAGTAA
TTTTACAAATCAAGGA
Found at i:83734720 original size:54 final size:54
Alignment explanation
Indices: 83734396--83734734 Score: 235
Period size: 54 Copynumber: 6.3 Consensus size: 54
83734386 TCTTACATGA
* * * * * * *
83734396 GTATTTCAGTAATTTTACAAATCGAGGGCATTTCAGTAATTTTGCAA-ACTGAAG
1 GTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAACCCAG-GG
* ** * **
83734450 GTATTTCGGTAATTTTACAAATCAAGGATATTTGGGTAATTTTATAAATCAGGG
1 GTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAACCCAGGG
* * **
83734504 GTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATC-GAGG
1 GTA-TTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAACCCAG-GG
** * ** *
83734558 GTATTTCAATAATTTTGCAAATTGAGGGTATTTCAATAATTTT--AACCTACAGGG
1 GTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAACC--CAGGG
* * ** * * * *
83734612 GTATTTCAGTAATTCTAC-CCTACAGGGGTATTTCGGTAATTCTAC--CCTATAGGG
1 GTATTTCGGTAATTTTACAAAT-CAAGGGTATTTCAGTAATTTTACAACC--CAGGG
* * *
83734666 GTATTTCGGTAATTTTATAAATCAAGGGTATTTTACTAATTTTACAACCCAGGG
1 GTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAACCCAGGG
*
83734720 GTATTTTGGTAATTT
1 GTATTTCGGTAATTT
83734735 GGTAAACTAA
Statistics
Matches: 223, Mismatches: 49, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
52 2 0.01
53 5 0.02
54 207 0.93
55 7 0.03
56 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (54 bp):
GTATTTCGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAACCCAGGG
Found at i:83741451 original size:30 final size:30
Alignment explanation
Indices: 83741417--83741475 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
83741407 TCCTTAACTC
83741417 AAACTTTGACAAAATTACA-TTTTTACCCCT
1 AAACTTTGACAAAATTACACTTTTT-CCCCT
* * *
83741447 AAACTTTTACATATTTACACTTTTTCCCC
1 AAACTTTGACAAAATTACACTTTTTCCCC
83741476 AGGGCTCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.41
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTTTTTCCCCT
Found at i:83747123 original size:28 final size:28
Alignment explanation
Indices: 83747083--83747142 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
83747073 CACTGATCAC
83747083 AAGAGTATGAAATATTTGATGACTCAGA
1 AAGAGTATGAAATATTTGATGACTCAGA
83747111 AAGAGTATGAAATATTTGATGACTCAGA
1 AAGAGTATGAAATATTTGATGACTCAGA
83747139 AAGA
1 AAGA
83747143 CTTACATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.27
Consensus pattern (28 bp):
AAGAGTATGAAATATTTGATGACTCAGA
Found at i:83754270 original size:17 final size:17
Alignment explanation
Indices: 83754248--83754282 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
83754238 ATGCCAGCAC
83754248 TTTAGTTAGATTTTAGT
1 TTTAGTTAGATTTTAGT
83754265 TTTAGTTAGATTTTAGT
1 TTTAGTTAGATTTTAGT
83754282 T
1 T
83754283 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (17 bp):
TTTAGTTAGATTTTAGT
Found at i:83760014 original size:40 final size:40
Alignment explanation
Indices: 83759849--83760016 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
83759839 AAATTGAATG
* * * *
83759849 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGAGATT
* * **
83759889 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGAGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAGATT
**
83759929 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGAGATT
* * *
83759969 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GAGATT
83760009 ATATCCGG
1 ATATCCGG
83760017 TTATATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 4 0.04
40 100 0.94
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAGATT
Found at i:83761853 original size:40 final size:40
Alignment explanation
Indices: 83761808--83761937 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
83761798 CGGAATATAA
*
83761808 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAAC
* * * *
83761848 CCGGATAGAATAACTCGCACGAATGCCTTCGGGT-TTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** *
83761887 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
83761927 CCGGATATAAT
1 CCGGATATAAT
83761938 TTCCAGCATA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 32 0.43
40 43 0.57
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:83761951 original size:40 final size:40
Alignment explanation
Indices: 83761808--83761974 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
83761798 CGGAATATAA
* ** * *
83761808 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
*
83761848 CCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGT-TTAAC
1 CCGGATATAATAAC-CAGCAC-AATTGCCTTCGGGTCTTAAC
*** *
83761887 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
** * * *
83761927 CCGGATATAATTTCCAGCATAATTGTCTTCAGGG-CTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTC-GGGTCTTAAC
83761967 CCGGATAT
1 CCGGATAT
83761975 TATTCAATTT
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
38 2 0.02
39 29 0.28
40 68 0.65
41 5 0.05
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAAC
Found at i:83769866 original size:40 final size:40
Alignment explanation
Indices: 83769821--83769987 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
83769811 CGGAATATAA
83769821 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
83769861 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
83769901 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
83769941 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
83769980 CCGGATAT
1 CCGGATAT
83769988 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:83772504 original size:13 final size:14
Alignment explanation
Indices: 83772480--83772509 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
83772470 GACTTCTGGA
83772480 TATAGAAAGATATT
1 TATAGAAAGATATT
83772494 TATAG-AAGATATT
1 TATAGAAAGATATT
83772507 TAT
1 TAT
83772510 GCAATCGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (14 bp):
TATAGAAAGATATT
Found at i:83774317 original size:37 final size:37
Alignment explanation
Indices: 83774264--83774366 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
83774254 CGAATAGTCC
*
83774264 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
83774301 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
83774338 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
83774367 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:83774569 original size:48 final size:48
Alignment explanation
Indices: 83774491--83775036 Score: 885
Period size: 48 Copynumber: 11.3 Consensus size: 48
83774481 TGGTCATTCG
* *
83774491 ACCACAATATACATACATCTCCTACATATTTCACATTAGCCATTCGACTTT
1 ACCAC-ATATACAT--ATCTCATACATATTTCACATTAGCCATTCGGCTTT
* *
83774542 ACCAAATATACATATCTCATACATATTTCACATTAGCCATTCGGATTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
* **
83774590 ACCACATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
* *
83774638 ACCACATATACATATCTCATATATATTTCACATTAGCCATTTGGCTTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
*
83774686 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
* *
83774734 ACCACTTATACATATCTCATATATATTTCACATTAGCCATTCGGCTTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
* *
83774782 ACCACATATATATATCTCATACATATTTCACACTAGCCATTCGGCTTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
*
83774830 ACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
*
83774878 ACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
*
83774926 ACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
*
83774974 ACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTT
1 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
* *
83775022 ACCACACATATATAT
1 ACCACATATACATAT
83775037 ATTTATCTTG
Statistics
Matches: 464, Mismatches: 31, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
48 452 0.97
50 8 0.02
51 4 0.01
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
Found at i:83776236 original size:2 final size:2
Alignment explanation
Indices: 83776199--83776227 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
83776189 TACCTAAGGC
83776199 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83776228 CCTATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:83779467 original size:107 final size:107
Alignment explanation
Indices: 83779337--83779552 Score: 432
Period size: 107 Copynumber: 2.0 Consensus size: 107
83779327 ATTGCATGCT
83779337 AAATGTGAAGCTTGTTGATGATGCATGTAATGAAGGATTGACTACTCTTGAAATTTCTTTTTAGT
1 AAATGTGAAGCTTGTTGATGATGCATGTAATGAAGGATTGACTACTCTTGAAATTTCTTTTTAGT
83779402 ATTCTTGAGTAGGACATTGAGTTCTTTGTTTAACCATGACCG
66 ATTCTTGAGTAGGACATTGAGTTCTTTGTTTAACCATGACCG
83779444 AAATGTGAAGCTTGTTGATGATGCATGTAATGAAGGATTGACTACTCTTGAAATTTCTTTTTAGT
1 AAATGTGAAGCTTGTTGATGATGCATGTAATGAAGGATTGACTACTCTTGAAATTTCTTTTTAGT
83779509 ATTCTTGAGTAGGACATTGAGTTCTTTGTTTAACCATGACCG
66 ATTCTTGAGTAGGACATTGAGTTCTTTGTTTAACCATGACCG
83779551 AA
1 AA
83779553 GTTGAAAGGG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (107 bp):
AAATGTGAAGCTTGTTGATGATGCATGTAATGAAGGATTGACTACTCTTGAAATTTCTTTTTAGT
ATTCTTGAGTAGGACATTGAGTTCTTTGTTTAACCATGACCG
Found at i:83780558 original size:40 final size:39
Alignment explanation
Indices: 83780437--83780560 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
83780427 TGTGAATGAA
* *
83780437 TGTGCGAATTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
83780476 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* **
83780515 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
83780555 TGTGCG
1 TGTGCG
83780561 GGTTACCATA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 59 0.79
40 16 0.21
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:83786750 original size:40 final size:39
Alignment explanation
Indices: 83786586--83786768 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
83786576 AAATTGAATG
* *
83786586 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
83786625 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
83786665 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
83786705 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
83786744 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
83786769 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.13
40 92 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:83786751 original size:80 final size:80
Alignment explanation
Indices: 83786629--83786777 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
83786619 GAAATTATAA
* * * *
83786629 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
83786694 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
83786709 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
83786773 GTGCG
65 GTGCG
83786778 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:83786793 original size:80 final size:81
Alignment explanation
Indices: 83786625--83786796 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
83786615 GCTGGAAATT
* * * *
83786625 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
83786690 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
83786706 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
83786769 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
83786785 ATAACCGGGCTA
1 ATAACCGGGCTA
83786797 TGTCCGAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:83794724 original size:40 final size:39
Alignment explanation
Indices: 83794680--83794786 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 39
83794670 GAAATTATAA
* *
83794680 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT--CATACTAT
*
83794720 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCATACTAT
83794760 CCGGGCTAAGACCCGAAGGCATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTGTGC
83794787 AAATCGTGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
38 1 0.02
39 9 0.15
40 51 0.84
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.21
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCGAGTCATACTAT
Found at i:83794843 original size:79 final size:81
Alignment explanation
Indices: 83794676--83794863 Score: 186
Period size: 79 Copynumber: 2.4 Consensus size: 81
83794666 GCTGGAAATT
* * * *
83794676 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
83794741 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * *
83794757 -TATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
83794819 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
83794835 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
83794864 ATCGAGTAGC
Statistics
Matches: 87, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
78 2 0.02
79 60 0.69
80 25 0.29
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.22
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:83798725 original size:46 final size:47
Alignment explanation
Indices: 83798634--83798735 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 47
83798624 CACTTAACTC
*
83798634 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
83798681 TCACATATATACACTTTCACATT-ATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
83798727 TCACATATA
1 TCACATATA
83798736 CATATCTTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 29 0.56
47 23 0.44
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:83810768 original size:29 final size:29
Alignment explanation
Indices: 83810735--83810836 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
83810725 TGACGAGATC
83810735 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
83810764 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
83810793 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
83810822 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
83810837 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:83818626 original size:29 final size:29
Alignment explanation
Indices: 83818593--83818694 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
83818583 TGACGAGATC
83818593 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
83818622 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
83818651 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
83818680 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
83818695 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:83825653 original size:20 final size:20
Alignment explanation
Indices: 83825625--83825662 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83825615 ATGATTTGAC
*
83825625 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
*
83825645 ATGAAATGCGCATGATAT
1 ATGAAATGCACATGATAT
83825663 ATTCATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:83831579 original size:205 final size:205
Alignment explanation
Indices: 83831223--83832348 Score: 1766
Period size: 205 Copynumber: 5.5 Consensus size: 205
83831213 TGATTTATGA
*
83831223 TTACAAGGAACAAACCAAAAACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
1 TTACAAGGAACAAACCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
* *
83831288 AGATGATTTGGCATATCTGTATTGTCAGAGAGCAAATCAAAGTCTGGCATCTCCACTTCAACGGG
66 AGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGG
83831353 GAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGC
131 GAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGC
*
83831418 ATTCTTGTGC
196 ATCCTTGTGC
*
83831428 TTACAAGGAACAAACCAAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAATCTA
1 TTACAAGGAACAAACCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
*
83831493 AGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGTCTGGCATCTCCACTTCAACGGG
66 AGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGG
* * * * * *
83831558 GAGCAGATAAATAGTAGATCTCACATTTAGATGTTTATACTGAAGCAAATCCAAGATGATTTAGT
131 GAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGC
*
83831623 ATCCTTGTGT
196 ATCCTTGTGC
* * * * *
83831633 TTACAAGGAGCGAATCAAAGACATAGTTGATTTGGCTTTCACGTGTTTATGTTGAAGCAAATCTA
1 TTACAAGGAACAAACCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
* * * *
83831698 AGATGATTTGGCATCTCTCTATTGTCTGAGAGAAAATCGAAGTCTGGCATCTCCACTTCAACAGG
66 AGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGG
* * *
83831763 GAGCAGATAAATAGCAGATCTCACCTTTAGATGTTTATACTGAAGGAGATCCAAGATGATTTAGC
131 GAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGC
83831828 ATCCTTGTGC
196 ATCCTTGTGC
*** * * * * *
83831838 TTACAAGGAGTGAATCGAATACATTGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAATCTA
1 TTACAAGGAACAAACCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
*
83831903 AGATGATTTGGCATCTCTGTATTGTTAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGG
66 AGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGG
* * *
83831968 GAGTAGATACATAGCAGATCTCACCTTCAGATGTTTAGACTGAAGCAGATCCAAGATGATTTAGA
131 GAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGC
* *
83832033 ATTCTTGTGT
196 ATCCTTGTGC
*
83832043 TTACAAGGAACAAACCAAAGACATAGCTGATTTGGCTTTCACGTGTTTATGTTGAAGCAAATCTA
1 TTACAAGGAACAAACCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
* * * *
83832108 AGATGATTTGGCATCTCTGTATTGTTAGAGAGCAAATTGAAGTCTTGCATCTCCAGTTCAACGGG
66 AGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGG
*
83832173 GAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGT
131 GAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGC
83832238 ATCCTTGTGC
196 ATCCTTGTGC
*** * *
83832248 TTACAAGGAGTGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
1 TTACAAGGAACAAACCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
** * *
83832313 AGATGATTTGTTATCTTTGTATTGTCAGAGAACAAA
66 AGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAA
83832349 CCAAAGAAGC
Statistics
Matches: 843, Mismatches: 78, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
205 843 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (205 bp):
TTACAAGGAACAAACCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
AGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGG
GAGCAGATACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGC
ATCCTTGTGC
Found at i:83834027 original size:16 final size:15
Alignment explanation
Indices: 83834000--83834071 Score: 71
Period size: 16 Copynumber: 4.9 Consensus size: 15
83833990 TTTTTAATCT
83834000 TATT-TTTA-TATTA
1 TATTATTTATTATTA
* *
83834013 TATTATATAATTATTT
1 TATTAT-TTATTATTA
83834029 TATTATTTATTATTCA
1 TATTATTTATTATT-A
83834045 TATTATTTA-TA-TA
1 TATTATTTATTATTA
*
83834058 TATTATATATTATT
1 TATTATTTATTATT
83834072 TTTACATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
13 13 0.27
14 4 0.08
15 12 0.25
16 19 0.40
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATTTATTATTA
Found at i:83834050 original size:9 final size:9
Alignment explanation
Indices: 83834005--83834072 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
83833995 AATCTTATTT
83834005 TTATATTATA
1 TTAT-TTATA
*
83834015 TTATATA-A
1 TTATTTATA
83834023 TTATTT-TA
1 TTATTTATA
83834031 TTA-TT-TA
1 TTATTTATA
*
83834038 TTATTCATA
1 TTATTTATA
83834047 TTATTTATA
1 TTATTTATA
83834056 TATATTATATA
1 T-TATT-TATA
83834067 TTATTT
1 TTATTT
83834073 TTACATATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 7 0.14
8 11 0.22
9 14 0.29
10 12 0.24
11 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (9 bp):
TTATTTATA
Found at i:83834054 original size:20 final size:20
Alignment explanation
Indices: 83834000--83834171 Score: 99
Period size: 20 Copynumber: 8.3 Consensus size: 20
83833990 TTTTTAATCT
83834000 TATT-TTTATATTATATTATA
1 TATTATTTATA-TATATTATA
*
83834020 TAATTATTTTATTATTTATTATTCA
1 T-ATTA-TTTA-TATATATTA-T-A
83834045 TATTATTTATATATATTATA
1 TATTATTTATATATATTATA
* *
83834065 TATTATTTTTACATA-TATA
1 TATTATTTATATATATTATA
*
83834084 CT-TTCATAT-TATATATTATA
1 -TATT-ATTTATATATATTATA
*
83834104 T-TTATTT-TATATTATTATG
1 TATTATTTATATA-TATTATA
*
83834123 TCATT-TTTTTATACTATTATA
1 T-ATTATTTATATA-TATTATA
*
83834144 TATATATTTTTATCTATATTAT-
1 TAT-TA--TTTATATATATTATA
83834166 TATTAT
1 TATTAT
83834172 CAAAAGTTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 35
0.72 0.07 0.21
Matches are distributed among these distances:
18 7 0.06
19 22 0.18
20 28 0.23
21 20 0.16
22 11 0.09
23 20 0.16
24 13 0.11
25 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (20 bp):
TATTATTTATATATATTATA
Found at i:83834075 original size:45 final size:40
Alignment explanation
Indices: 83834011--83834153 Score: 134
Period size: 39 Copynumber: 3.5 Consensus size: 40
83834001 ATTTTTATAT
83834011 TATATTATATAATTATTTTATTATTTATTATTCATATTATTTATA
1 TATATTATAT-ATTATTTTA-TA-TTATTATTCAT-TTATTT-TA
* * *
83834056 TATATTATATATTATTTT-TA-CATATATAC-TTTCATATTA
1 TATATTATATATTATTTTATATTAT-TATTCATTT-ATTTTA
83834095 TATATTATAT-TTATTTTATATTATTATGTCATTT-TTTTA
1 TATATTATATATTATTTTATATTATTAT-TCATTTATTTTA
83834134 TACTATTATATATATATTTT
1 TA-TATTATATAT-TATTTT
83834154 TATCTATATT
Statistics
Matches: 83, Mismatches: 6, Indels: 21
0.75 0.05 0.19
Matches are distributed among these distances:
38 7 0.08
39 25 0.30
40 17 0.20
41 8 0.10
42 8 0.10
44 8 0.10
45 10 0.12
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (40 bp):
TATATTATATATTATTTTATATTATTATTCATTTATTTTA
Found at i:83834121 original size:13 final size:13
Alignment explanation
Indices: 83833999--83834121 Score: 53
Period size: 13 Copynumber: 9.3 Consensus size: 13
83833989 ATTTTTAATC
83833999 TTATTTT-TA-TA
1 TTATTTTATATTA
* *
83834010 TTATATTATATAA
1 TTATTTTATATTA
83834023 TTATTTTATTATTTA
1 TTATTTTA-TA-TTA
*
83834038 TTA-TTCATATTA
1 TTATTTTATATTA
*
83834050 TTTATATATATTATATA
1 -TTAT-TTTA-TAT-TA
*
83834067 TTATTTT-TACATA
1 TTATTTTATA-TTA
*
83834080 TATACTTTCATATTA
1 T-TA-TTTTATATTA
*
83834095 -TATATTATA-T-
1 TTATTTTATATTA
83834105 TTATTTTATATTA
1 TTATTTTATATTA
83834118 TTAT
1 TTAT
83834122 GTCATTTTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
11 15 0.18
12 11 0.13
13 24 0.29
14 7 0.09
15 14 0.17
16 9 0.11
17 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTTTATATTA
Found at i:83834512 original size:12 final size:13
Alignment explanation
Indices: 83834468--83834516 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
83834458 TTTTTTTTTG
*
83834468 TTATTATATATTA
1 TTATTAAATATTA
83834481 TATATTAAATATTA
1 T-TATTAAATATTA
83834495 TT-TTAAA-ATTA
1 TTATTAAATATTA
83834506 TTATTAAATAT
1 TTATTAAATAT
83834517 CATATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.19
12 10 0.31
13 4 0.12
14 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTAAATATTA
Found at i:83834522 original size:12 final size:12
Alignment explanation
Indices: 83834481--83834522 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
83834471 TTATATATTA
83834481 TATATTAAATAT
1 TATATTAAATAT
*
83834493 TATTTTAAA-AT
1 TATATTAAATAT
83834504 TATTATTAAATAT
1 TA-TATTAAATAT
*
83834517 CATATT
1 TATATT
83834523 TTTTTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 4 0.16
12 18 0.72
13 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTAAATAT
Found at i:83836863 original size:20 final size:20
Alignment explanation
Indices: 83836835--83836872 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83836825 ATGATTTGAC
*
83836835 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
*
83836855 ATGAAATGCGCATGATAT
1 ATGAAATGCACATGATAT
83836873 ATTCATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:83840527 original size:93 final size:93
Alignment explanation
Indices: 83840415--83840585 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
83840405 GCCCATAAGT
* * *
83840415 GAACTCGGAGTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83840480 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
83840508 GAACTTGGACTCAACTCAACGAGTTCGGACAGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83840573 CGAGTTCGGATGC
66 CGAGTTCGGATGC
83840586 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:83840582 original size:46 final size:46
Alignment explanation
Indices: 83840407--83840582 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
83840397 TGTAACCCGC
* * * *
83840407 CCATAAGTGAACTCGGAGTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTCGCAT
**
83840453 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTCGCAT
* * * *
83840503 --TTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACAGTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTCGCAT
83840546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
83840583 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 62 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTCGCAT
Found at i:83842533 original size:15 final size:15
Alignment explanation
Indices: 83842507--83842562 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
83842497 CAAGGAAACC
83842507 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
83842522 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
83842537 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
83842552 GAATAAAGAAA
1 GAATAAAGAAA
83842563 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:83845638 original size:92 final size:92
Alignment explanation
Indices: 83845527--83845697 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
83845517 CACCCCTAAG
* *
83845527 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
83845592 ACGAGTTCGGATGCCAGTTACATTTCA
66 ACGAGTTCGGATGCCAGTTACATTTCA
*
83845619 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
83845684 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
83845698 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (92 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCAGTTACATTTCA
Found at i:83845694 original size:46 final size:46
Alignment explanation
Indices: 83845523--83845694 Score: 226
Period size: 46 Copynumber: 3.7 Consensus size: 46
83845513 AACCCACCCC
* * *
83845523 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
83845569 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---CA-TTCGCATCCA
*
83845616 TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
83845661 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
83845695 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 92 0.84
47 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:83850948 original size:27 final size:27
Alignment explanation
Indices: 83850915--83850969 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
83850905 CAAATTTGAG
*
83850915 ATTGAAAATTTATTTTAATATTATTTT
1 ATTGAAAATTTATTCTAATATTATTTT
83850942 ATTGAAAATTTATTCTAATATTATTTT
1 ATTGAAAATTTATTCTAATATTATTTT
83850969 A
1 A
83850970 AGCGTTTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (27 bp):
ATTGAAAATTTATTCTAATATTATTTT
Found at i:83853021 original size:39 final size:38
Alignment explanation
Indices: 83852937--83853132 Score: 230
Period size: 39 Copynumber: 5.0 Consensus size: 38
83852927 AAAATCCAAT
* * * *
83852937 CACCACCACAAAGCATGCGGGACTTTAAGCCCAGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* * *
83852977 TACCAGCACAAAACCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAA
* *
83853016 CACCAGCACGAATGCCTTCGGAACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
*
83853055 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
* *
83853094 CACCAGCACAAATGTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAA
83853133 TTCTCCATTA
Statistics
Matches: 140, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
38 2 0.01
39 106 0.76
40 32 0.23
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.18
Consensus pattern (38 bp):
CACCAGCACAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:83866502 original size:40 final size:40
Alignment explanation
Indices: 83866375--83866504 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
83866365 ATGCTGGAAA
* *
83866375 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
83866415 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
83866455 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
83866495 TTATATCCGG
1 TTATATCCGG
83866505 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:83874450 original size:39 final size:40
Alignment explanation
Indices: 83874354--83874465 Score: 156
Period size: 39 Copynumber: 2.8 Consensus size: 40
83874344 ATGCTGAAAT
* * *
83874354 TATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCGC
*
83874394 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG-
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCGC
*
83874433 TTTATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGC
83874466 ACGTGGTTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 34 0.52
40 31 0.48
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCGC
Found at i:83877554 original size:40 final size:40
Alignment explanation
Indices: 83877458--83877576 Score: 157
Period size: 40 Copynumber: 3.0 Consensus size: 40
83877448 TCGAATGTAT
* * * * * *
83877458 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
83877499 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
83877539 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
83877577 TCCAAGGCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 44 0.65
41 24 0.35
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:83877624 original size:65 final size:66
Alignment explanation
Indices: 83877514--83877638 Score: 225
Period size: 65 Copynumber: 1.9 Consensus size: 66
83877504 TCAATTCCCG
* *
83877514 AAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAATC
1 AAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAATTACCAATC
83877579 C
66 C
83877580 AAGGCATTTGTGCGAGTTACC-AAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAATTAC
1 AAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAATTAC
83877639 TATAACCGGG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 36 0.63
66 21 0.37
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (66 bp):
AAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCAATTGTGCGAATTACCAATC
C
Found at i:83877657 original size:40 final size:39
Alignment explanation
Indices: 83877580--83877666 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
83877570 TTACCAATCC
* * *
83877580 AAGGCATTTGTGCGAGTTACCAAACCGGGTTAAGTCCCG
1 AAGGCAATTGTGCGAATTACCAAACCGGGCTAAGTCCCG
* *
83877619 AAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCG
1 AAGGCAATTGTGCGAATTACCA-AACCGGGCTAAGTCCCG
*
83877659 AAGACAAT
1 AAGGCAAT
83877667 CGAGCGAGTC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 19 0.46
40 22 0.54
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (39 bp):
AAGGCAATTGTGCGAATTACCAAACCGGGCTAAGTCCCG
Found at i:83877682 original size:40 final size:40
Alignment explanation
Indices: 83877602--83877687 Score: 91
Period size: 40 Copynumber: 2.1 Consensus size: 40
83877592 CGAGTTACCA
* * * * *
83877602 AACCGGGTTAAGTCCCGAAGGCAATTGTGCGAATTACTAT
1 AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
* * *
83877642 AACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCTAT
1 AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
*
83877682 ATCCGG
1 AACCGG
83877688 TTAAATTCGA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
Found at i:83885598 original size:40 final size:40
Alignment explanation
Indices: 83885533--83885710 Score: 248
Period size: 40 Copynumber: 4.5 Consensus size: 40
83885523 AAGACTAAAT
* *
83885533 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
*
83885573 CTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
83885613 CCGGGTTAAGTCCCGGAGGCATTTATGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * *
83885653 CTGGGTTAAGTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
83885693 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
83885711 ACAATCGAGT
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:83891140 original size:42 final size:43
Alignment explanation
Indices: 83891092--83891194 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
83891082 GAGATTACGA
* * *
83891092 GTAAGACCATATCTGGGATA-TGGCGTCAATATGAGA-CTTCTT
1 GTAAGACCATATCTGGGATATTGGCATCAATATGAGATC-CCAT
* *
83891134 GTAAGACCATAGCTGGGCTATTGGCATCAATATGAGATCCCAT
1 GTAAGACCATATCTGGGATATTGGCATCAATATGAGATCCCAT
83891177 GTAAGACCATATCTGGGA
1 GTAAGACCATATCTGGGA
83891195 CATGACACTA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 18 0.35
43 33 0.63
44 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
GTAAGACCATATCTGGGATATTGGCATCAATATGAGATCCCAT
Found at i:83892282 original size:33 final size:34
Alignment explanation
Indices: 83892204--83892294 Score: 112
Period size: 34 Copynumber: 2.7 Consensus size: 34
83892194 GTTTTAGTTA
* * *
83892204 GGGCCTTAGCCCATTTCATAATCAGAAACAGTGT
1 GGGCCTAAGCCCATTACAAAATCAGAAACAGTGT
* * * *
83892238 GGGCCTCAGCCCATTACAGAATCAGTATCAGTG-
1 GGGCCTAAGCCCATTACAAAATCAGAAACAGTGT
83892271 GGGCCTAAGCCCATTACAAAATCA
1 GGGCCTAAGCCCATTACAAAATCA
83892295 ATGCAGTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 22 0.44
34 28 0.56
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (34 bp):
GGGCCTAAGCCCATTACAAAATCAGAAACAGTGT
Found at i:83894175 original size:40 final size:40
Alignment explanation
Indices: 83894067--83894276 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
83894057 CGGGATTTAA
* * * * *
83894067 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
83894107 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
83894147 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
83894187 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
83894227 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
83894267 CCGGATATAT
1 CCGGATATAT
83894277 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:83902310 original size:40 final size:40
Alignment explanation
Indices: 83902202--83902411 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
83902192 CGGGATTTAA
* * * * *
83902202 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
83902242 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
83902282 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
83902322 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
83902362 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
83902402 CCGGATATAT
1 CCGGATATAT
83902412 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:83905366 original size:28 final size:27
Alignment explanation
Indices: 83905323--83905410 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
83905313 GGAGAAAGCG
*
83905323 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
83905351 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * * *
83905378 ATCTAGTGACTCTGTCACAATATCTG-
1 TTCTGGTGGCTCTGCCACAATATCTGT
83905404 TTCTGGT
1 TTCTGGT
83905411 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.09
27 31 0.58
28 17 0.32
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:83905538 original size:6 final size:6
Alignment explanation
Indices: 83905529--83905600 Score: 58
Period size: 6 Copynumber: 11.7 Consensus size: 6
83905519 TTGCATTCAC
* * *
83905529 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
83905579 ATTCTC ATTCTG ATTCTG ATTC
1 ATTCTG ATTCTG ATTCTG ATTC
83905601 CAATTCTGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
5 4 0.08
6 42 0.79
7 4 0.08
8 3 0.06
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:83905596 original size:25 final size:25
Alignment explanation
Indices: 83905529--83905596 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
83905519 TTGCATTCAC
* * *
83905529 ATTCTGATTCTGATTCTATTACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
83905554 ATACTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
83905579 ATTCTCATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
83905597 ATTCCAATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:83905630 original size:37 final size:37
Alignment explanation
Indices: 83905551--83905632 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
83905541 ATTCTATTAC
* **
83905551 CTGATACTGATTCTGATTCTGTCACCTAATTCTCATT
1 CTGATTCTGATTCCAATTCTGTCACCTAATTCTCATT
* *
83905588 CTGATTCTGATTCCAATTCTGTCACTTGATTCTCATT
1 CTGATTCTGATTCCAATTCTGTCACCTAATTCTCATT
*
83905625 TTGATTCT
1 CTGATTCT
83905633 AGTTCTAGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCCAATTCTGTCACCTAATTCTCATT
Found at i:83913632 original size:27 final size:27
Alignment explanation
Indices: 83913601--83913655 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
83913591 TTATAATAAG
83913601 TTGAGAACTTATGGGTTATGATATAGA
1 TTGAGAACTTATGGGTTATGATATAGA
83913628 TTGAGAACTTATGGGTTATGATATAGA
1 TTGAGAACTTATGGGTTATGATATAGA
83913655 T
1 T
83913656 AAACTTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (27 bp):
TTGAGAACTTATGGGTTATGATATAGA
Found at i:83915986 original size:28 final size:28
Alignment explanation
Indices: 83915937--83916001 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
83915927 AAATTAACCC
* *
83915937 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAACTTTGCACACA
* *
83915965 TAGGGGTATAATGGTAACTTTGCATACA
1 TAGGGGTATAAAGGTAACTTTGCACACA
*
83915993 CAGGGGTAT
1 TAGGGGTAT
83916002 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAACTTTGCACACA
Found at i:83917088 original size:12 final size:13
Alignment explanation
Indices: 83917069--83917101 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
83917059 GGATTCGGCT
83917069 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
83917082 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
83917094 ATGGAGAA
1 ATGGAGAA
83917102 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:83921343 original size:43 final size:42
Alignment explanation
Indices: 83921252--83921347 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
83921242 TTTGAATTTA
* * *
83921252 CATGTAAGACTATATCTGGGACATGGCATCGATATAAGACTT
1 CATGTAAGACCATAGCTGGGACATGGCATCGATATAAGACTC
* *
83921294 CGTGTAAGACCATAGCTGGG-CTATTGGCATCGATATGAGA-TCC
1 CATGTAAGACCATAGCTGGGAC-A-TGGCATCGATATAAGACT-C
83921337 CATGTAAGACC
1 CATGTAAGACC
83921348 GTATCTAGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.02
42 19 0.42
43 25 0.56
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (42 bp):
CATGTAAGACCATAGCTGGGACATGGCATCGATATAAGACTC
Found at i:83924847 original size:46 final size:46
Alignment explanation
Indices: 83924697--83924861 Score: 140
Period size: 46 Copynumber: 3.6 Consensus size: 46
83924687 TGTAACCCGC
* * **
83924697 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGG-CCTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* * * * *
83924743 CTATAAGTGAACTCGGACTCAACTCAAC-AGTTCGGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* *
83924788 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * *
83924835 CCATAAGTGAACTTGGACTCAAATCAA
1 CCATAAGCGAACTCGGACTCAACTCAA
83924862 AAAGTTCAAG
Statistics
Matches: 91, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
44 2 0.02
45 8 0.09
46 66 0.73
47 15 0.16
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:83929852 original size:47 final size:47
Alignment explanation
Indices: 83929794--83929917 Score: 230
Period size: 47 Copynumber: 2.6 Consensus size: 47
83929784 TCCATAAGTG
83929794 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACC
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACC
* *
83929841 AACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACC
83929888 AACTCGGACTCAACTCAACGAGTTCGGATG
1 AACTCGGACTCAACTCAACGAGTTCGGATG
83929918 TTCGCATCCA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACC
Found at i:83937616 original size:50 final size:49
Alignment explanation
Indices: 83937494--83937682 Score: 193
Period size: 50 Copynumber: 3.8 Consensus size: 49
83937484 TGAGGTCGCA
* * * *
83937494 TGTGTAGTACTAAGTGCAGGCTACTATG-CGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTC-TACCAGATAA-T-TGGTCACG
* * **
83937545 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATT-GGTCACG
* * * *
83937595 TGTGTAGTACTAAGTGTAGGCTACTACGTCTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATTGGTCACG
* *
83937644 TGTGTAGTACTATGTGCAGGCTACTATG-CGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTC-TACCAGATA
83937683 GCTTTGGCTA
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 39 0.34
50 43 0.37
51 32 0.28
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATTGGTCACG
Found at i:83937681 original size:99 final size:101
Alignment explanation
Indices: 83937494--83937681 Score: 247
Period size: 99 Copynumber: 1.9 Consensus size: 101
83937484 TGAGGTCGCA
* *
83937494 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
* *
83937559 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
* * * * * *
83937595 TGTGTAGTACTAAGTGTAGGCTACTACGTC-TACCGGATAA-T-TGGTCGCATGTGTAGTACTAT
1 TGTGTAGTACTAAGTGCAGGCTACTACG-CGTACCCGAAAACTGTGATCACATGTGTAGTACTAA
*
83937657 GTGCAGGCTACTATGCGTACCAGAT
65 GTGCAGGCTACTACGCGTACCAGAT
83937682 AGCTTTGGCT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
99 39 0.52
100 1 0.01
101 34 0.45
102 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
Found at i:83940712 original size:15 final size:15
Alignment explanation
Indices: 83940692--83940722 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
83940682 CTTGGGTTTC
83940692 TTTATTCTGGATTTT
1 TTTATTCTGGATTTT
*
83940707 TTTATTCTGGGTTTT
1 TTTATTCTGGATTTT
83940722 T
1 T
83940723 CTATCTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.06, G:0.16, T:0.68
Consensus pattern (15 bp):
TTTATTCTGGATTTT
Found at i:83943003 original size:50 final size:50
Alignment explanation
Indices: 83942869--83943065 Score: 218
Period size: 50 Copynumber: 3.9 Consensus size: 50
83942859 ATCTATTGTG
* * * * *
83942869 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-T
* * * **
83942921 -GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
83942970 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTCTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
83943020 A-GTCACATGTGTAGTACTATGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
83943066 GCTTTGGCTA
Statistics
Matches: 121, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
49 40 0.33
50 44 0.36
51 37 0.31
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:83945133 original size:35 final size:35
Alignment explanation
Indices: 83944994--83945191 Score: 182
Period size: 35 Copynumber: 5.7 Consensus size: 35
83944984 TAGGTAAGTA
*
83944994 TATATTGAACTTGTATATTCAGCTACATGTGAGGT
1 TATATTGAACTTGTATATTCGGCTACATGTGAGGT
* * ** *
83945029 TATATTGAACTTGTGTATTTGATTACATGTGAGCT
1 TATATTGAACTTGTATATTCGGCTACATGTGAGGT
* *
83945064 TATACTGAACTTGTATATTTGGCTACATGTGAGGT
1 TATATTGAACTTGTATATTCGGCTACATGTGAGGT
* * * *
83945099 TATATTGAATTTGTATATTCGGCCATATGAGAGGT
1 TATATTGAACTTGTATATTCGGCTACATGTGAGGT
* * * * * * * *
83945134 T-TATTTAAACTTGAACATTAGGTTACATGTAATGA
1 TATA-TTGAACTTGTATATTCGGCTACATGTGAGGT
* *
83945169 TATATTGAATTTATATATTCGGC
1 TATATTGAACTTGTATATTCGGC
83945192 CATATGAAAT
Statistics
Matches: 125, Mismatches: 36, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
34 2 0.02
35 121 0.97
36 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (35 bp):
TATATTGAACTTGTATATTCGGCTACATGTGAGGT
Found at i:83948948 original size:46 final size:45
Alignment explanation
Indices: 83948895--83949070 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
83948885 TATTTGGGCA
*
83948895 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAATG
* *
83948941 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATG-AA--ATG
* **
83948986 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAATG
* * *
83949034 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83949071 GCGCGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
45 2 0.02
46 63 0.57
47 27 0.24
48 1 0.01
50 9 0.08
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAATG
Found at i:83949050 original size:93 final size:93
Alignment explanation
Indices: 83948891--83949061 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
83948881 GGGATATTTG
* ***
83948891 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
83948956 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTTGAGAGATGTAACTA
* * *
83948984 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
83949049 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
83949062 CGCTTATGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTTGAGAGATGTAACTA
Found at i:83951985 original size:15 final size:15
Alignment explanation
Indices: 83951961--83952036 Score: 84
Period size: 15 Copynumber: 5.1 Consensus size: 15
83951951 TCTTGGGTTT
* *
83951961 TTTATCCTGGATCTC
1 TTTATTCTGGATTTC
83951976 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
*
83951991 TTTATTCTGGGTTTC
1 TTTATTCTGGATTTC
*
83952006 TCTA-TCTTGGATTTC
1 TTTATTC-TGGATTTC
*
83952021 TTTATTC-GGTTTTC
1 TTTATTCTGGATTTC
83952035 TT
1 TT
83952037 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
14 10 0.19
15 40 0.77
16 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:83952017 original size:30 final size:30
Alignment explanation
Indices: 83951949--83952035 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
83951939 CATAGTATCG
* * * *
83951949 TATCTTGGGTTT-TTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
83951978 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
83952008 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
83952036 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 16 0.33
30 31 0.63
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:83954562 original size:44 final size:44
Alignment explanation
Indices: 83954412--83954577 Score: 192
Period size: 44 Copynumber: 3.7 Consensus size: 44
83954402 GGCATCCGAA
* *
83954412 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CGAG
*** ** *
83954457 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATTAACTAG-GCATC-CGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGA-T-GCG-AACGCGAG
83954503 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCGAG
*
83954547 CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83954578 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
43 3 0.03
44 36 0.36
45 27 0.27
46 30 0.30
47 2 0.02
48 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (44 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCGAG
Found at i:83956247 original size:15 final size:17
Alignment explanation
Indices: 83956229--83956260 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
83956219 TAGCATAATT
83956229 TACCAAA-TC-CATTCA
1 TACCAAACTCACATTCA
83956244 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
83956261 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:83957920 original size:29 final size:29
Alignment explanation
Indices: 83957892--83957994 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
83957882 CCTCCGAGCT
** * * *
83957892 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
83957921 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
83957950 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
83957979 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
83957995 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:83960071 original size:17 final size:17
Alignment explanation
Indices: 83960049--83960090 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
83960039 AATAAAATGA
83960049 AGTAAGCTATATAGCTT
1 AGTAAGCTATATAGCTT
83960066 AGTAAGCTATATAGCTT
1 AGTAAGCTATATAGCTT
83960083 AGTAAGCT
1 AGTAAGCT
83960091 CGTATGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (17 bp):
AGTAAGCTATATAGCTT
Found at i:83960177 original size:26 final size:26
Alignment explanation
Indices: 83960148--83960209 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
83960138 TATAACATAA
*
83960148 GATAACATACTTTACCATAATATCAT
1 GATAACATAATTTACCATAATATCAT
83960174 GATAACATAATTTACCATAATATCAT
1 GATAACATAATTTACCATAATATCAT
83960200 GAT--CATAATT
1 GATAACATAATT
83960210 CACTTCAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 7 0.20
26 28 0.80
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (26 bp):
GATAACATAATTTACCATAATATCAT
Found at i:83962238 original size:39 final size:40
Alignment explanation
Indices: 83962138--83962320 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
83962128 TCGAATGATG
* * * * *
83962138 TCCGGGCTGAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * *
83962178 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
83962218 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
83962257 CCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
**
83962298 T-CGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
83962321 TGAGCGCGTC
Statistics
Matches: 115, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
39 33 0.29
40 73 0.63
41 9 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:83962275 original size:79 final size:82
Alignment explanation
Indices: 83962138--83962322 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
83962128 TCGAATGATG
* * * *
83962138 TCCGGGCTGAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
83962202 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
83962218 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
* *
83962280 TCGTGTGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
83962298 T-CGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
83962323 AGCGCGTCGT
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 54 0.61
80 34 0.38
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Done.