Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 77 of 349
Found at i:22503781 original size:44 final size:44
Alignment explanation
Indices: 22503726--22504227 Score: 381
Period size: 44 Copynumber: 11.4 Consensus size: 44
22503716 ATGTAGATCA
*
22503726 AAGAAAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
* * * * * * *
22503770 AAGATAGCAGATCTGACA-CTCTTGTGCTTACAGTGAAGCAGATCG
1 AAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAATCG
** * * *
22503815 AAGATTTCAGCA--TGGCATCACTGTGTTTATAGGGAACAAGTTG
1 AAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
** * * * *
22503858 AAGATTTCAG-TATGGCATCCCTATGTTTATAGGGAACAAGTTG
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
*
22503901 AAGATAGCAGATTTGGCATCCCTGTGTTTATGGGGAACAAATCG
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
* * * * ** * * * *
22503945 AAGATAGTAGATCTGACATTCCTGTGCATACAGCGAAGTAGATCG
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCG
** * *
22503990 AAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTG
1 AAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
* *
22504033 AAGATAGAAGATTTGGCATCCCTGTGTTTATAGGGAACAAATTG
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
* * * * * * * *
22504077 AAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCG
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCG
** * *
22504122 AAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTG
1 AAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
** * * *
22504165 AAGATAGCAGATTTGGCATCATTGTGCTTACAAGGAACAAATCG
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
*
22504209 AAGACATAGCTGATTTGGC
1 AAG--ATAGCAGATTTGGC
22504228 TTTCATGGTT
Statistics
Matches: 355, Mismatches: 86, Indels: 32
0.75 0.18 0.07
Matches are distributed among these distances:
42 2 0.01
43 74 0.21
44 223 0.63
45 40 0.11
46 16 0.05
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (44 bp):
AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCG
Found at i:22504022 original size:175 final size:176
Alignment explanation
Indices: 22503726--22504126 Score: 579
Period size: 175 Copynumber: 2.3 Consensus size: 176
22503716 ATGTAGATCA
*
22503726 AAGAAAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
* * *
22503791 TTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCACTGTGTTTATAGGGAACAAGT
66 CTGTGCATACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCACTGTGTTTATAGGGAACAAGT
*** *
22503856 TGAAGATTTCAG-TATGGCATCCCTATGTTTATAGGGAACAAGTTG
131 TGAAGATAGAAGATATGGCATCCCTATGTTTATAGGGAACAAATTG
* * *
22503901 AAGATAGCAGATTTGGCATCCCTGTGTTTATGGGGAACAAATCGAAGATAGTAGATCTGACATTC
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
* *
22503966 CTGTGCATACAGCGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
66 CTGTGCATACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCACTGTGTTTATAGGGAACAAGT
* *
22504031 TGAAGATAGAAGATTTGGCATCCCTGTGTTTATAGGGAACAAATTG
131 TGAAGATAGAAGATATGGCATCCCTATGTTTATAGGGAACAAATTG
* * * * * * * *
22504077 AAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGAT
22504127 TTCAGCATGG
Statistics
Matches: 200, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
175 130 0.65
176 59 0.29
177 11 0.05
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (176 bp):
AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
CTGTGCATACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCACTGTGTTTATAGGGAACAAGT
TGAAGATAGAAGATATGGCATCCCTATGTTTATAGGGAACAAATTG
Found at i:22504024 original size:132 final size:132
Alignment explanation
Indices: 22503857--22504212 Score: 577
Period size: 132 Copynumber: 2.7 Consensus size: 132
22503847 GGAACAAGTT
* *
22503857 GAAGATTTCAGTATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
* ** *
22503922 CTGTGTTTATGGGGAACAAATCGAAGATAGTAGATCTGACATTCCTGTGCATACAGCGAAGTAGA
66 CTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTGACATTCCTGTGCATACAGCGAAGCAGA
22503987 TC
131 TC
*
22503989 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGAAGATTTGGCATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
* * *
22504054 CTGTGTTTATAGGGAACAAATTGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGA
66 CTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTGACATTCCTGTGCATACAGCGAAGCAGA
22504119 TC
131 TC
*
22504121 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCA
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
* * * *
22504186 TTGTGCTTACAAGGAACAAATCGAAGA
66 CTGTGTTTATAGGGAACAAATCGAAGA
22504213 CATAGCTGAT
Statistics
Matches: 207, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 207 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (132 bp):
GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
CTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTGACATTCCTGTGCATACAGCGAAGCAGA
TC
Found at i:22504690 original size:206 final size:206
Alignment explanation
Indices: 22504174--22505120 Score: 1450
Period size: 206 Copynumber: 4.6 Consensus size: 206
22504164 GAAGATAGCA
* * *
22504174 GATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
22504238 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGAACAAATCGAAGTTTGG
* *** * *
22504303 CGTCTCCATATTCGACGGAGAGTAGACACATAGCAGATCCGGCCTTTATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
* *
22504368 AGGT-CAAGGT
196 AGATCCAAGAT
* *
22504378 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTTACGTACT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
22504443 TACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGAATAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGAACAAATCGAAGTTTGG
** *
22504508 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
22504573 AGATCCAAGGT
196 AGATCCAAGAT
22504584 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
22504649 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAA-AGAACAAATCAAAGTTTG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT-AAGAGAACAAATCGAAGTTTG
22504713 GCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAG
130 GCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAG
22504778 CAGATCCAAGAT
195 CAGATCCAAGAT
* * * *
22504790 GATTTGGCATTCTTGTGCTTACAAAGAACAAATCGAAGACATTGTTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
22504855 TACGATGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAATTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGAACAAATCGAAGTTTGG
* * * *
22504920 CGTCTCCATATTCGACGGAGGGCAGACACATAACAGATCTAACCTTCAGATGATTAGACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
22504985 AGATCCAAGAT
196 AGATCCAAGAT
* * * * * * * **
22504996 GGTTTGGTATCCTTGTGTTTACAGGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGTGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * * *
22505061 TATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAGATCGAAG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGAACAAATCGAAG
22505121 ATAATAGATT
Statistics
Matches: 689, Mismatches: 50, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
204 58 0.08
205 128 0.19
206 501 0.73
207 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGAT
Found at i:22505520 original size:17 final size:17
Alignment explanation
Indices: 22505502--22505562 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
22505492 TATAATCATT
*
22505502 AAGGATATGCAATCTTT
1 AAGGATATGCAATCTTG
22505519 AAGGATATGCAATCTTAG
1 AAGGATATGCAATCTT-G
*
22505537 ATATGATATGCAATCTTG
1 A-AGGATATGCAATCTTG
22505555 AA-GATATG
1 AAGGATATG
22505563 ATCTTGTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.15
17 17 0.43
18 3 0.08
19 14 0.35
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (17 bp):
AAGGATATGCAATCTTG
Found at i:22505541 original size:14 final size:17
Alignment explanation
Indices: 22505495--22505562 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
22505485 ATGGAAATAT
*
22505495 AATCATTAAGGATATGC
1 AATCTTTAAGGATATGC
22505512 AATCTTTAAGGATATGC
1 AATCTTTAAGGATATGC
* *
22505529 AATCTTAGATATGATATGC
1 AATCTT-TA-AGGATATGC
*
22505548 AATCTTGAA-GATATG
1 AATCTTTAAGGATATG
22505563 ATCTTGTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.13
17 23 0.50
18 3 0.07
19 14 0.30
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (17 bp):
AATCTTTAAGGATATGC
Found at i:22505561 original size:21 final size:19
Alignment explanation
Indices: 22505505--22505564 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
22505495 AATCATTAAG
* *
22505505 GATATGCAATCTT-TA-AG
1 GATATGCAATCTTAGATAT
22505522 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
22505541 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
22505562 GAT
1 GAT
22505565 CTTGTAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.35
18 1 0.03
19 14 0.38
21 9 0.24
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22505581 original size:22 final size:21
Alignment explanation
Indices: 22505522--22505564 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
22505512 AATCTTTAAG
22505522 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
22505541 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
22505562 GAT
1 GAT
22505565 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:22505759 original size:17 final size:17
Alignment explanation
Indices: 22505737--22505772 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22505727 TTCACTCAAA
22505737 TTTCTCTCCTTCTTGCG
1 TTTCTCTCCTTCTTGCG
22505754 TTTCTCTCCTTCTTGCG
1 TTTCTCTCCTTCTTGCG
22505771 TT
1 TT
22505773 CTTACTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.33, G:0.11, T:0.56
Consensus pattern (17 bp):
TTTCTCTCCTTCTTGCG
Found at i:22508097 original size:10 final size:10
Alignment explanation
Indices: 22508084--22508140 Score: 59
Period size: 9 Copynumber: 6.0 Consensus size: 10
22508074 TATTTAAAAA
22508084 TATATAATTT
1 TATATAATTT
22508094 TATACT--TTT
1 TATA-TAATTT
*
22508103 TAAATAATTT
1 TATATAATTT
22508113 TA-ATAATTT
1 TATATAATTT
*
22508122 TAAATAATTT
1 TATATAATTT
22508132 T-TATAATTT
1 TATATAATTT
22508141 ATTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 1 0.02
9 22 0.54
10 17 0.41
11 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (10 bp):
TATATAATTT
Found at i:22508111 original size:19 final size:19
Alignment explanation
Indices: 22508087--22508140 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
22508077 TTAAAAATAT
*
22508087 ATAATTTT-ATACTTTTTAA
1 ATAATTTTAATA-ATTTTAA
22508106 ATAATTTTAATAATTTTAA
1 ATAATTTTAATAATTTTAA
*
22508125 ATAATTTTTATAATTT
1 ATAATTTTAATAATTT
22508141 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 29 0.91
20 3 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATAATTTTAATAATTTTAA
Found at i:22512336 original size:40 final size:40
Alignment explanation
Indices: 22512261--22512356 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 40
22512251 CATCTCTGTT
* * *
22512261 TAACCCAACACACC-A-TGTGGGGATAAAATCGACCCACC
1 TAACCCTACACACCAAGTATGGGAATAAAATCGACCCACC
*
22512299 TAACCCTACACACCAAGTATGGGAATAAAATCGACCCATC
1 TAACCCTACACACCAAGTATGGGAATAAAATCGACCCACC
* *
22512339 TAGCCCTATACACCAAGT
1 TAACCCTACACACCAAGT
22512357 GGTACTGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 13 0.26
39 1 0.02
40 36 0.72
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.17
Consensus pattern (40 bp):
TAACCCTACACACCAAGTATGGGAATAAAATCGACCCACC
Found at i:22517279 original size:43 final size:43
Alignment explanation
Indices: 22517080--22517265 Score: 250
Period size: 43 Copynumber: 4.3 Consensus size: 43
22517070 CGTTTATGAA
* *
22517080 AAAAACACCGCTAAAAGTCATGA-TCTTTAGCGGCGC-TTTCCC
1 AAAAACGCCGCTAAAGGTCATGACT-TTTAGCGGCGCTTTTCCC
* *
22517122 AAAAATGCCGCTAAAGGTCATGACTTTTAGCTGCGCTTTTCCC
1 AAAAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCC
* * * * *
22517165 ATAAACGCCGCTAAAGGTCATGACCTGTAGCGGCACTTTTCCT
1 AAAAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCC
* *
22517208 ACAAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCT
1 AAAAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCC
22517251 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
22517266 AATATGACCT
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 30 0.24
43 96 0.76
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCC
Found at i:22523501 original size:29 final size:27
Alignment explanation
Indices: 22523483--22523552 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
22523473 ATATTAAGTC
22523483 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
22523510 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
22523538 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
22523553 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:22523546 original size:28 final size:28
Alignment explanation
Indices: 22523483--22523580 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
22523473 ATATTAAGTC
*
22523483 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
22523510 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
22523538 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
22523567 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22523581 CAATCTCAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22531354 original size:29 final size:27
Alignment explanation
Indices: 22531336--22531405 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
22531326 ATATTAAGTC
22531336 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
22531363 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
22531391 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
22531406 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:22531399 original size:28 final size:28
Alignment explanation
Indices: 22531336--22531433 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
22531326 ATATTAAGTC
*
22531336 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
22531363 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
22531391 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
22531420 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22531434 CAATCTCAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22533722 original size:40 final size:40
Alignment explanation
Indices: 22533627--22533829 Score: 281
Period size: 40 Copynumber: 5.1 Consensus size: 40
22533617 TGGATGATAA
*
22533627 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
22533668 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
22533708 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
22533748 CCGGGCTAA-TCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
22533787 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
22533826 CCGG
1 CCGG
22533830 TTAAATCCCA
Statistics
Matches: 149, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 54 0.36
40 65 0.44
41 24 0.16
42 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:22533789 original size:79 final size:80
Alignment explanation
Indices: 22533627--22533829 Score: 281
Period size: 79 Copynumber: 2.5 Consensus size: 80
22533617 TGGATGATAA
*
22533627 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCAT
* *
22533690 TTGTGCGAGTTATTACAT
63 TGGTGCGAGTTACTACAT
22533708 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAA-TCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
*
22533772 TGCGAGTTACTATAT
66 TGCGAGTTACTACAT
* *
22533787 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
22533830 TTAAATCCCA
Statistics
Matches: 113, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
77 2 0.02
78 18 0.16
79 48 0.42
80 17 0.15
81 24 0.21
82 4 0.04
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTACAT
Found at i:22537444 original size:15 final size:15
Alignment explanation
Indices: 22537426--22537473 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
22537416 CCGAACCTTT
22537426 AACCCATAAACCATA
1 AACCCATAAACCATA
* *
22537441 AA-CCATAATCCCTA
1 AACCCATAAACCATA
22537455 AACCCATAATA-CATA
1 AACCCATAA-ACCATA
22537470 AACC
1 AACC
22537474 TTACAATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCATAAACCATA
Found at i:22537944 original size:40 final size:39
Alignment explanation
Indices: 22537839--22537989 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 39
22537829 CAAAATTATT
* * * * *
22537839 TAGCAGCGCTTTTTAGAAAACGTCGCTAAAGATCAAGC-A
1 TAGCGGCG-TTTTTAGAAAGCGCCGCTAAAGCTCAATCTA
* * * * **
22537878 TTAGCGGCATTTTTTAAAAAGAGCCGCTAAAGGTGTA-CATA
1 -TAGCGGC-GTTTTTAGAAAGCGCCGCTAAAGCTCAATC-TA
*
22537919 TAGCGGCGTTTTTAGAAGAGCGCCGCTAATA-CTCAATCTT
1 TAGCGGCGTTTTTAGAA-AGCGCCGCTAA-AGCTCAATCTA
22537959 TAGCGGCGTTTTTAGAAAGCGCCGCTAAAGC
1 TAGCGGCGTTTTTAGAAAGCGCCGCTAAAGC
22537990 CACCAAAGGC
Statistics
Matches: 88, Mismatches: 16, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
38 1 0.01
39 21 0.24
40 63 0.72
41 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (39 bp):
TAGCGGCGTTTTTAGAAAGCGCCGCTAAAGCTCAATCTA
Found at i:22549233 original size:62 final size:62
Alignment explanation
Indices: 22549101--22549246 Score: 163
Period size: 62 Copynumber: 2.3 Consensus size: 62
22549091 CTTATAACAA
* *
22549101 TCTGGCATTTAGTGCATCATTGGAATATAATTGAAGTATCATGCACTTAGCGTTATCATATCAT
1 TCTGGCA-TTAGTGCATCATTGGAATAT-ATTGAAGTATCATGCACTCAGCGCTATCATATCAT
* * *
22549165 TGTGGCACTTAGTGCATCATTGGAA-AGT-TTGAAGTAAT-ATGCGCTCAGTGCTATCATATCAT
1 TCTGGCA-TTAGTGCATCATTGGAATA-TATTGAAGT-ATCATGCACTCAGCGCTATCATATCAT
*
22549227 TCTGGCATATAGTGTATCAT
1 TCTGGCAT-TAGTGCATCAT
22549247 GAAAATCTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
61 1 0.01
62 43 0.61
63 3 0.04
64 24 0.34
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (62 bp):
TCTGGCATTAGTGCATCATTGGAATATATTGAAGTATCATGCACTCAGCGCTATCATATCAT
Found at i:22549303 original size:42 final size:42
Alignment explanation
Indices: 22549236--22549320 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
22549226 TTCTGGCATA
*
22549236 TAGTGTATCATGAAAATCTACTGAAGTAATATATCTGGCACCT
1 TAGTGTATCATGAAAATCTA-TGAAGCAATATATCTGGCACCT
*
22549279 TAGTGTATCATTGAAAAGT-T-TGAAGCAATATATCTTGCACCT
1 TAGTGTATCA-TGAAAA-TCTATGAAGCAATATATCTGGCACCT
22549321 CAATGCATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
42 20 0.53
43 10 0.26
44 7 0.18
45 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (42 bp):
TAGTGTATCATGAAAATCTATGAAGCAATATATCTGGCACCT
Found at i:22553860 original size:311 final size:311
Alignment explanation
Indices: 22553297--22553903 Score: 993
Period size: 311 Copynumber: 2.0 Consensus size: 311
22553287 AAACAGGCTA
* *
22553297 TTACAACTCTCCCCCTTAGGAAATTTCATCCTCGAAATTTTTACTTGAGAAGACAATTGAGTATT
1 TTACAACTCTCCCCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAATTGAGTATT
* * * *
22553362 GTGACTTCTTTAATTCCTCAGTTCCCCAGGTAGCTTATTTAATACGGAATATGAAAGATAATGAT
66 GTGACTTCTTCAATTCCTCAGTTCCCCAGGTAACTTATGTAATACGAAATATGAAAGATAATGAT
*
22553427 CTACTGACAATCTCGAATAATGTAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAAGC
131 CTACTGACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAAGC
* * *
22553492 CTCATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATCTTCTTTGGATATAATAGACAATGA
196 CTCATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATCTTCTTCGAAAATAATAGACAATGA
*
22553557 TACTCTGTTTAATCTGACAATCTCTAATACATATAAATGGAAAACGAGTTG
261 TACTCTATTTAATCTGACAATCTCTAATACATATAAATGGAAAACGAGTTG
*
22553608 TTACAACTCTCCTCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAATCT-AGTAT
1 TTACAACTCTCCCCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAAT-TGAGTAT
*
22553672 TGTGACTTCTTCAATTCCTCAGTTCCCCATGTAACTTATGTAATACGAAATA-GAAAAGATAATG
65 TGTGACTTCTTCAATTCCTCAGTTCCCCAGGTAACTTATGTAATACGAAATATG-AAAGATAATG
* *
22553736 ATCTATTGACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATTCCAAA
129 ATCTACTGACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAA
* * * * *
22553801 GCCTCTTTGAGTTTCCTCAAAATCTCTAGGTGAATCCCAGATCTTGTTCGAAAATAATAGACAAT
194 GCCTCATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATCTTCTTCGAAAATAATAGACAAT
*
22553866 GATACTCTATTTAATTTGACAATCTCTAATACATATAA
259 GATACTCTATTTAATCTGACAATCTCTAATACATATAA
22553904 CTCAGCTACT
Statistics
Matches: 273, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
310 1 0.00
311 271 0.99
312 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.33
Consensus pattern (311 bp):
TTACAACTCTCCCCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAATTGAGTATT
GTGACTTCTTCAATTCCTCAGTTCCCCAGGTAACTTATGTAATACGAAATATGAAAGATAATGAT
CTACTGACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAAGC
CTCATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATCTTCTTCGAAAATAATAGACAATGA
TACTCTATTTAATCTGACAATCTCTAATACATATAAATGGAAAACGAGTTG
Found at i:22558731 original size:22 final size:22
Alignment explanation
Indices: 22558701--22558753 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
22558691 TCTAATTTTG
*
22558701 ATCTATTCTGCAACTGTATCTGA
1 ATCTGTTCTGCAACTGTATCT-A
*
22558724 AT-TGTTCTGCATCTGTATCTA
1 ATCTGTTCTGCAACTGTATCTA
22558745 ATCTGTTCT
1 ATCTGTTCT
22558754 TTAACTTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 22 0.81
23 2 0.07
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (22 bp):
ATCTGTTCTGCAACTGTATCTA
Found at i:22562909 original size:57 final size:57
Alignment explanation
Indices: 22562830--22562962 Score: 178
Period size: 57 Copynumber: 2.3 Consensus size: 57
22562820 CACTCTCAAT
* * *
22562830 CATATAAACAGTAATTTATTCAATAACACTAGCTCA-CTCATTTAAACAGTACTTCATC
1 CATAT-AACAGTAATTCATTCAATAACAATAACTCATC-CATTTAAACAGTACTTCATC
* * * *
22562888 CGTATAACAATAATTCATTCAATAATAATAACTCATCCGTTTAAACAGTACTTCATC
1 CATATAACAGTAATTCATTCAATAACAATAACTCATCCATTTAAACAGTACTTCATC
22562945 CATATAACAGTAATTCAT
1 CATATAACAGTAATTCAT
22562963 CCGTATAACA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 60 0.92
58 5 0.08
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (57 bp):
CATATAACAGTAATTCATTCAATAACAATAACTCATCCATTTAAACAGTACTTCATC
Found at i:22562945 original size:20 final size:19
Alignment explanation
Indices: 22562874--22562972 Score: 92
Period size: 19 Copynumber: 5.2 Consensus size: 19
22562864 CACTCATTTA
*
22562874 AACAGTACTTCATCCGTAT
1 AACAGTAATTCATCCGTAT
* * *
22562893 AACAATAATTCATTC-AAT
1 AACAGTAATTCATCCGTAT
* * * *
22562911 AATAATAACTCATCCGTTT
1 AACAGTAATTCATCCGTAT
* *
22562930 AAACAGTACTTCATCCATAT
1 -AACAGTAATTCATCCGTAT
22562950 AACAGTAATTCATCCGTAT
1 AACAGTAATTCATCCGTAT
22562969 AACA
1 AACA
22562973 CATAGCTTTT
Statistics
Matches: 61, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
18 14 0.23
19 34 0.56
20 13 0.21
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (19 bp):
AACAGTAATTCATCCGTAT
Found at i:22563212 original size:24 final size:24
Alignment explanation
Indices: 22563155--22563243 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
22563145 GTTGAAACAG
* *
22563155 TAAGCTCTGACGAGCTGAAAAC-A
1 TAAGCTCTTACGAGCTGAGAACGA
*
22563178 GTAAGCCCTTACGAGCTGAGAACGA
1 -TAAGCTCTTACGAGCTGAGAACGA
* * *
22563203 TAAGCTCTTATGATCTGAGAATGA
1 TAAGCTCTTACGAGCTGAGAACGA
*
22563227 TAAGCTTTTACGAGCTG
1 TAAGCTCTTACGAGCTG
22563244 TGGTGAGTCC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 53 0.98
25 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAGCTCTTACGAGCTGAGAACGA
Found at i:22580663 original size:27 final size:27
Alignment explanation
Indices: 22580626--22580759 Score: 119
Period size: 27 Copynumber: 5.0 Consensus size: 27
22580616 AAAACCCCCG
* *
22580626 ATTTGTAAAATTATCGAAATACCCTCA
1 ATTTATAAAATTATCGAAATACCCTTA
* * *
22580653 ATTTTTGAAATTACCGAAATACCCTTA
1 ATTTATAAAATTATCGAAATACCCTTA
* * *
22580680 ACTTATAAAATTA-CTGAAATACCTTTG
1 ATTTATAAAATTATC-GAAATACCCTTA
* *
22580707 GTTTGTAAAATTATCGAAATACCCTT-
1 ATTTATAAAATTATCGAAATACCCTTA
* * *
22580733 GTAGTGTAAAATTATCGAAATACCCTT
1 AT-TTATAAAATTATCGAAATACCCTT
22580760 GTAGGGTAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.03
27 86 0.96
28 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (27 bp):
ATTTATAAAATTATCGAAATACCCTTA
Found at i:22580760 original size:27 final size:27
Alignment explanation
Indices: 22580685--22580770 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
22580675 CCTTAACTTA
* *
22580685 TAAAATTA-CTGAAATACCTTTGGT-TTG
1 TAAAATTATC-GAAATACCCTT-GTAGTG
22580712 TAAAATTATCGAAATACCCTTGTAGTG
1 TAAAATTATCGAAATACCCTTGTAGTG
*
22580739 TAAAATTATCGAAATACCCTTGTAGGG
1 TAAAATTATCGAAATACCCTTGTAGTG
22580766 TAAAA
1 TAAAA
22580771 CGACTGTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
26 2 0.04
27 51 0.94
28 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTTGTAGTG
Found at i:22582353 original size:14 final size:14
Alignment explanation
Indices: 22582334--22582371 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
22582324 CAGACATGGT
22582334 CTTTCGGACGACGC
1 CTTTCGGACGACGC
22582348 CTTTCGGACGACGC
1 CTTTCGGACGACGC
22582362 CTTTCGGACG
1 CTTTCGGACG
22582372 TTGGAGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.13, C:0.34, G:0.29, T:0.24
Consensus pattern (14 bp):
CTTTCGGACGACGC
Found at i:22597701 original size:13 final size:13
Alignment explanation
Indices: 22597666--22597724 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
22597656 TAAATTTTTC
22597666 CAAAA-CACTTCT
1 CAAAAGCACTTCT
*
22597678 CAAAAGTACTTCT
1 CAAAAGCACTTCT
* *
22597691 CAAGAGCACTTTT
1 CAAAAGCACTTCT
* * *
22597704 CCACAGCACTTTT
1 CAAAAGCACTTCT
22597717 CAAAAGCA
1 CAAAAGCA
22597725 ATGAATAACT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
12 5 0.13
13 33 0.87
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.25
Consensus pattern (13 bp):
CAAAAGCACTTCT
Found at i:22600887 original size:12 final size:12
Alignment explanation
Indices: 22600867--22600899 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
22600857 AAAAACAACT
22600867 AAAAAGAAAATG
1 AAAAAGAAAATG
*
22600879 AAAATGAAAATG
1 AAAAAGAAAATG
22600891 AAAAAGAAA
1 AAAAAGAAA
22600900 TAAACTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:22601075 original size:10 final size:10
Alignment explanation
Indices: 22601060--22601119 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
22601050 CAGATTCGTA
22601060 AAATAAAAAT
1 AAATAAAAAT
*
22601070 AAATAATACAAA
1 AAATAA-A-AAT
* *
22601082 AAATAATAAC
1 AAATAAAAAT
22601092 AAATAAAAAT
1 AAATAAAAAT
22601102 AAA-ATAAAAT
1 AAATA-AAAAT
*
22601112 AAAGAAAA
1 AAATAAAA
22601120 GGGTAAAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 1 0.02
10 30 0.73
11 2 0.05
12 8 0.20
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:22601096 original size:7 final size:6
Alignment explanation
Indices: 22601059--22601114 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
22601049 ACAGATTCGT
*
22601059 AAAATA AAAATA AATAATA CAAAA-A ATAATA ACAAATA AAAAT- AAAAT-
1 AAAATA AAAATA AA-AATA -AAAATA AAAATA A-AAATA AAAATA AAAATA
22601107 AAAATA AA
1 AAAATA AA
22601115 GAAAAGGGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
5 13 0.30
6 17 0.40
7 11 0.26
8 2 0.05
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:22601111 original size:16 final size:16
Alignment explanation
Indices: 22601058--22601114 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
22601048 AACAGATTCG
22601058 TAAAATAAAAAT-AAA
1 TAAAATAAAAATAAAA
22601073 TAATACA-AAAAATAATAA
1 TAA-A-ATAAAAATAA-AA
*
22601091 -CAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
22601106 TAAAATAAA
1 TAAAATAAA
22601115 GAAAAGGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
15 6 0.18
16 23 0.68
17 3 0.09
18 2 0.06
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:22613458 original size:26 final size:26
Alignment explanation
Indices: 22613410--22613460 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
22613400 ATTTTGTCAG
*
22613410 CCAAACACATGAATTTTACATTCCAA
1 CCAAACACATGAATCTTACATTCCAA
*
22613436 CCAAACA-ATGTAATCTTATATTCCA
1 CCAAACACATG-AATCTTACATTCCA
22613461 CTTGTAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.41, C:0.25, G:0.04, T:0.29
Consensus pattern (26 bp):
CCAAACACATGAATCTTACATTCCAA
Found at i:22639287 original size:39 final size:39
Alignment explanation
Indices: 22639244--22639439 Score: 193
Period size: 39 Copynumber: 5.1 Consensus size: 39
22639234 AATAGAAATA
*
22639244 CGGTGATTATTTGGGCTAAGTGCCTAGCAGACTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
* * * *
22639283 CGGTGATTATTCAGACTAAGTGCATAGCA-AGCTTTCTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGA-CTTTGTGC
* *
22639322 CGGTGATTATTCAGGCTAAGTGTCC-AGCAGGA-TCTGTGC
1 CGGTGATTATTCGGGCTAAGTG-CCTAGCA-GACTTTGTGC
* * *
22639361 TGGTGATTATTTGGGCTAAGTGCCT-GCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
* * ** * *
22639399 CGGTGACTATTCGGGTTTTGTGCCTAGCAGCCTGTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
22639438 CG
1 CG
22639440 ATGTTTTGGA
Statistics
Matches: 128, Mismatches: 22, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
37 1 0.01
38 31 0.24
39 94 0.73
40 1 0.01
41 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.31, T:0.32
Consensus pattern (39 bp):
CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
Found at i:22639437 original size:77 final size:78
Alignment explanation
Indices: 22639257--22639439 Score: 192
Period size: 77 Copynumber: 2.4 Consensus size: 78
22639247 TGATTATTTG
*
22639257 GGCTAAGTGCCTAGCAGACTTTGTGCCGGTGATTATTCAGACTAAGTGCATAGCAAGCTTTCTGC
1 GGCTAAGTGCCTAGCAGACTCTGTGCCGGTGATTATTCAGACTAAGTGCATAGCAAGCTTTCTGC
*
22639322 CGGTGATTATTCA
66 CGGTGACTATTCA
* ** * * * *
22639335 GGCTAAGTGTCC-AGCAGGA-TCTGTGCTGGTGATTATTTGGGCTAAGTGCCT-GCAGGCTTTGT
1 GGCTAAGTG-CCTAGCA-GACTCTGTGCCGGTGATTATTCAGACTAAGTGCATAGCAAGCTTTCT
*
22639397 GCCGGTGACTATTCG
64 GCCGGTGACTATTCA
* ** * *
22639412 GGTTTTGTGCCTAGCAGCCTGTGTGCCG
1 GGCTAAGTGCCTAGCAGACTCTGTGCCG
22639440 ATGTTTTGGA
Statistics
Matches: 85, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
76 3 0.04
77 39 0.46
78 39 0.46
79 4 0.05
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (78 bp):
GGCTAAGTGCCTAGCAGACTCTGTGCCGGTGATTATTCAGACTAAGTGCATAGCAAGCTTTCTGC
CGGTGACTATTCA
Found at i:22640589 original size:27 final size:27
Alignment explanation
Indices: 22640559--22640612 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
22640549 ATATATAATT
22640559 ATTA-TAAAATAATTAAATTCTACTTAA
1 ATTATTAAAAT-ATTAAATTCTACTTAA
* *
22640586 ATTATTAAAATGTTAAATTTTACTTAA
1 ATTATTAAAATATTAAATTCTACTTAA
22640613 TTTGATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTATTAAAATATTAAATTCTACTTAA
Found at i:22650143 original size:27 final size:26
Alignment explanation
Indices: 22650087--22650145 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
22650077 TTGGAGGAAG
* ** *
22650087 TTCTGTACTAGTGGTTTTGCCATGTA
1 TTCTGTACTAGTGGCTCCGCCATATA
*
22650113 TTCTGATACTAGTGGCTCCGCCATATT
1 TTCTG-TACTAGTGGCTCCGCCATATA
22650140 TTCTGT
1 TTCTGT
22650146 TATTAGCAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.44
Consensus pattern (26 bp):
TTCTGTACTAGTGGCTCCGCCATATA
Found at i:22664509 original size:13 final size:13
Alignment explanation
Indices: 22664491--22664516 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22664481 CATGTTTCCA
22664491 AAAACCATTTGTT
1 AAAACCATTTGTT
22664504 AAAACCATTTGTT
1 AAAACCATTTGTT
22664517 TGTATAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:22683627 original size:22 final size:23
Alignment explanation
Indices: 22683584--22683627 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
22683574 TCTGTCAAAA
*
22683584 ATTATCAAAATTAATCACAATTT
1 ATTATCAAAATTAATCAAAATTT
22683607 ATTAT-AAAATTAAGT-AAAATT
1 ATTATCAAAATTAA-TCAAAATT
22683628 CAACCTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTATCAAAATTAATCAAAATTT
Found at i:22696133 original size:17 final size:17
Alignment explanation
Indices: 22696111--22696154 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
22696101 TTTACCCGTT
*
22696111 TGGGGCCCACACGCCTG
1 TGGGGCCCACACGCCTA
22696128 TGGGGCCCACACGCCTA
1 TGGGGCCCACACGCCTA
*
22696145 TGGGGTCCAC
1 TGGGGCCCAC
22696155 TTGGTCGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.39, G:0.34, T:0.14
Consensus pattern (17 bp):
TGGGGCCCACACGCCTA
Found at i:22704481 original size:47 final size:47
Alignment explanation
Indices: 22704427--22704531 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
22704417 TAGTATTAAT
*
22704427 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
22704474 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
22704521 AATGTGATAAG
1 TATGTGATAAG
22704532 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:22728606 original size:39 final size:40
Alignment explanation
Indices: 22728471--22728694 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
22728461 TTGAATGCTG
* * * * *
22728471 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
22728511 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22728550 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22728590 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22728630 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
22728669 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
22728695 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 67 0.43
40 82 0.52
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22728611 original size:79 final size:78
Alignment explanation
Indices: 22728471--22728694 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
22728461 TTGAATGCTG
* * * * *
22728471 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
22728535 TGTGCGAGATA-CAAA
63 TGTGCGAGATATCAAA
* * *
22728550 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
22728615 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * * *
22728630 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAG-TACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
22728695 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 10 0.08
79 81 0.66
80 24 0.20
81 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:22728712 original size:79 final size:79
Alignment explanation
Indices: 22728551--22728727 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
22728541 AGATACAAAT
* * * *
22728551 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
22728616 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
22728630 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
22728694 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
22728709 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22728728 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 25 0.30
79 58 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:22736515 original size:40 final size:40
Alignment explanation
Indices: 22736418--22736602 Score: 155
Period size: 40 Copynumber: 4.7 Consensus size: 40
22736408 TTGAATGCTG
* * * *
22736418 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
22736458 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* * * * *
22736497 TTCCGGGTTAAGCCCCGAAGACCTTTGTACGAGGTACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
22736538 TCCGGGTTAAGTCCCGAAGGCA-TTGTGAGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
22736577 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
22736603 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 35 0.30
40 69 0.58
41 13 0.11
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:22741085 original size:41 final size:41
Alignment explanation
Indices: 22741018--22741097 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
22741008 CATAACTTCG
* * *
22741018 GCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTTA
1 GCTATATATGGCACCTAATGTACGAGATCGAGATAGCTTTA
22741059 GCTATATATGGCACCTAATGTACGAGATCGAGATAGCTT
1 GCTATATATGGCACCTAATGTACGAGATCGAGATAGCTT
22741098 CGACTATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (41 bp):
GCTATATATGGCACCTAATGTACGAGATCGAGATAGCTTTA
Found at i:22741105 original size:41 final size:41
Alignment explanation
Indices: 22741013--22741108 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
22741003 TTCAACATAA
* * * *
22741013 CTTCGGCTATATATGGCACTTAGTGTGCGAGATCGAGATAG
1 CTTCGACTATATATGGCACCTAATGTACGAGATCGAGATAG
*
22741054 CTT-TAGCTATATATGGCACCTAATGTACGAGATCGAGATAG
1 CTTCGA-CTATATATGGCACCTAATGTACGAGATCGAGATAG
22741095 CTTCGACTATATAT
1 CTTCGACTATATAT
22741109 ATGGCACTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 46 0.98
42 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (41 bp):
CTTCGACTATATATGGCACCTAATGTACGAGATCGAGATAG
Found at i:22752017 original size:41 final size:41
Alignment explanation
Indices: 22751926--22752074 Score: 192
Period size: 41 Copynumber: 3.6 Consensus size: 41
22751916 TGATGATAAA
* * * *
22751926 TCAGCTATATGTGGCACTTAGTGTGCGA-TTCAACATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
*
22751966 TCGGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
* * *
22752007 TCAGCTATATATGGCACTTAGTATGCAAGATTGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
*
22752048 TCGGCTATATATATGGCACTTAGTGTG
1 TCAGC--TATATATGGCACTTAGTGTG
22752075 AAATTTGAGA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 26 0.27
41 50 0.53
43 19 0.20
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
Found at i:22754593 original size:25 final size:25
Alignment explanation
Indices: 22754521--22754598 Score: 95
Period size: 26 Copynumber: 3.1 Consensus size: 25
22754511 GAGGAAGTGC
* * * *
22754521 AAAAGGGC-TATGCCCTAGTTACCG
1 AAAAGGGCTTTTGCCCCAGTTATCA
22754545 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAG-TTATCA
*
22754571 AAAAGGGCTTTTGCCCCAGTTATTA
1 AAAAGGGCTTTTGCCCCAGTTATCA
22754596 AAA
1 AAA
22754599 GAGACTAGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
24 8 0.17
25 16 0.34
26 23 0.49
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTATCA
Found at i:22754853 original size:31 final size:31
Alignment explanation
Indices: 22754815--22754887 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
22754805 TACAGTAAAG
*
22754815 GCTTCGGCCCACTGATATGAATAATGAAAAA
1 GCTTCGGCCCAATGATATGAATAATGAAAAA
* *
22754846 GCTTCGGCCCAATGATATGAATAATGTAAAG
1 GCTTCGGCCCAATGATATGAATAATGAAAAA
*
22754877 GCTTCAGCCCA
1 GCTTCGGCCCA
22754888 GTATATGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (31 bp):
GCTTCGGCCCAATGATATGAATAATGAAAAA
Found at i:22756687 original size:24 final size:24
Alignment explanation
Indices: 22756679--22756766 Score: 149
Period size: 24 Copynumber: 3.7 Consensus size: 24
22756669 CATTCCAATA
*
22756679 CGCACACATAGTGCCATACAAATC
1 CGCACACATAGTGCCATACAAATT
22756703 CGCACACATAGTGCCATACAAATT
1 CGCACACATAGTGCCATACAAATT
* *
22756727 CGCACATATAGTGCCATTCAAATT
1 CGCACACATAGTGCCATACAAATT
22756751 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
22756767 AAATCATTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.20
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATT
Found at i:22756712 original size:48 final size:48
Alignment explanation
Indices: 22756631--22756763 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 48
22756621 CATGTTAACC
* ** * * * * *
22756631 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATA
1 CGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATA
* * *
22756679 CGCACACATAGTGCCATACAAATCCGCACACATAGTGCCATACAAATT
1 CGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATA
* *
22756727 CGCACATATAGTGCCATTCAAATTCGCACACATAGTG
1 CGCACACATAGTGCCATACAAATTCGCACACATAGTG
22756764 CCAAAATCAT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (48 bp):
CGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATA
Found at i:22756745 original size:72 final size:72
Alignment explanation
Indices: 22756630--22756766 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
22756620 CCATGTTAAC
* ** * * *
22756630 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATACGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATACGCACACATAGTGCCA
22756695 TACAAAT
66 TACAAAT
* * * *
22756702 CCGCACACATAGTGCCATACAAATTCGCACATATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATACGCACACATAGTGCCA
22756767 AAATCATTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATACGCACACATAGTGCCA
TACAAAT
Found at i:22757961 original size:17 final size:17
Alignment explanation
Indices: 22757939--22757972 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22757929 CCCCACTTAA
*
22757939 TATATTATAACTTATTT
1 TATATTATAACATATTT
22757956 TATATTATAACATATTT
1 TATATTATAACATATTT
22757973 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:22764291 original size:24 final size:24
Alignment explanation
Indices: 22764216--22764349 Score: 137
Period size: 24 Copynumber: 5.7 Consensus size: 24
22764206 CATGTTAACC
* **
22764216 CGCACACATAGTGCCTTAGTAATT
1 CGCACACATAGTGCCATACAAATT
* * * * * *
22764240 CACATACATATTGACATTCCAATT
1 CGCACACATAGTGCCATACAAATT
*
22764264 CGCACACATAGTGCCATACAAATC
1 CGCACACATAGTGCCATACAAATT
*
22764288 CGCACACATAGTGCCATACATATT
1 CGCACACATAGTGCCATACAAATT
* *
22764312 CGCACAC--AGTGCCATTCTAATT
1 CGCACACATAGTGCCATACAAATT
22764334 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
22764350 AAATCATTTC
Statistics
Matches: 88, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
22 19 0.22
24 69 0.78
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.25
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATT
Found at i:22765903 original size:21 final size:20
Alignment explanation
Indices: 22765879--22765930 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
22765869 TTCGTGTAAC
*
22765879 TAAAATGTATGTTTAT-ATGTT
1 TAAAATGTATG-TTATGAT-TG
* *
22765900 TAAATTGAATGTTATGATTG
1 TAAAATGTATGTTATGATTG
22765920 TAAAATGTATG
1 TAAAATGTATG
22765931 ATTTCCATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (20 bp):
TAAAATGTATGTTATGATTG
Found at i:22766596 original size:21 final size:21
Alignment explanation
Indices: 22766572--22766611 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22766562 CTTAACAATT
*
22766572 AACCCCTAAACCTTAAACCCC
1 AACCCCTAAACCATAAACCCC
*
22766593 AACCCTTAAACCATAAACC
1 AACCCCTAAACCATAAACC
22766612 ATAAACCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCCCTAAACCATAAACCCC
Found at i:22766609 original size:7 final size:7
Alignment explanation
Indices: 22766599--22766645 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
22766589 CCCCAACCCT
22766599 TAAACCA
1 TAAACCA
22766606 TAAACCA
1 TAAACCA
22766613 TAAACCA
1 TAAACCA
*
22766620 TAATCCA
1 TAAACCA
22766627 TAAACCCA
1 TAAA-CCA
*
22766635 TAATCCA
1 TAAACCA
22766642 TAAA
1 TAAA
22766646 TCTTAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:22766637 original size:15 final size:14
Alignment explanation
Indices: 22766599--22766645 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
22766589 CCCCAACCCT
*
22766599 TAAACCATAAACCA
1 TAAACCATAATCCA
22766613 TAAACCATAATCCA
1 TAAACCATAATCCA
22766627 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
22766642 TAAA
1 TAAA
22766646 TCTTAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 17 0.55
15 14 0.45
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:22766652 original size:22 final size:21
Alignment explanation
Indices: 22766603--22766644 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
22766593 AACCCTTAAA
22766603 CCATAAACCATAAACCATAAT
1 CCATAAACCATAAACCATAAT
*
22766624 CCATAAACCCATAATCCATAA
1 CCATAAA-CCATAAACCATAA
22766645 ATCTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (21 bp):
CCATAAACCATAAACCATAAT
Found at i:22767127 original size:40 final size:40
Alignment explanation
Indices: 22766912--22767127 Score: 211
Period size: 40 Copynumber: 5.4 Consensus size: 40
22766902 ACAATTTTTA
* * * **
22766912 AAAAGCGCCGCTAATGGTCAATCTATAGCGGCATTTTT-T
1 AAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCT
* * * * *
22766951 AAAAAGTGTCGCTAAAGGTCGAGCTATAGCGGCGTTTTT-T
1 -AAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCT
* * *
22766991 AAAAGTGCCACTAATGCTCGATCTATAGCGATGTTTTTCA
1 AAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCT
** * * * * * *
22767031 AAAAGCACGGCTAATGCTCGATTTGTAACGATATTTTTCT
1 AAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCT
22767071 AAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCT
1 AAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCT
*
22767111 GAAAGTGCCGCTAATGC
1 AAAAGTGCCGCTAATGC
22767128 CACTAAAGCT
Statistics
Matches: 143, Mismatches: 32, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 31 0.22
40 112 0.78
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (40 bp):
AAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCT
Found at i:22767223 original size:40 final size:38
Alignment explanation
Indices: 22767167--22767429 Score: 175
Period size: 40 Copynumber: 6.6 Consensus size: 38
22767157 TTTTTCGGCA
* *
22767167 TTTTTAAAAAATGCCGCTAATGCTCGATCTATAGCTGCG
1 TTTTTGAAAAACGCCGCTAATGCTCGATCTATAGC-GCG
* *
22767206 CTTTTTGAAAAACGCCGCTAATGCTGGATCTATAGCAGCAT
1 -TTTTTGAAAAACGCCGCTAATGCTCGATCTATAGC-GC-G
* * * * * *
22767247 TTTTTGAAAAGCGTCGTTAAAGGTCGAGCTATAGCGGCG
1 TTTTTGAAAAACGCCGCTAATGCTCGATCTATAGC-GCG
* * *
22767286 TTTTTTAAAAAGCGCCACTAATGCTCGATCTATACCGACG
1 TTTTTGAAAAA-CGCCGCTAATGCTCGATCTATAGCG-CG
* * * * * **
22767326 TTTTTCAAAAAGCGTCGCTAGTGCTCGATCTGTAACGATA
1 TTTTTGAAAAA-CGCCGCTAATGCTCGATCTATAGCG-CG
* * * *
22767366 TTTTTGTAAAAGCGCTGCTAATGCTCGACCTATAGCGGTG
1 TTTTTG-AAAAACGCCGCTAATGCTCGATCTATAGC-GCG
* * *
22767406 TTTTTCTAAAAGCGGCGCTAATGC
1 TTTTT-GAAAAACGCCGCTAATGC
22767430 CACTAAAGCT
Statistics
Matches: 174, Mismatches: 43, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
39 10 0.06
40 159 0.91
41 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (38 bp):
TTTTTGAAAAACGCCGCTAATGCTCGATCTATAGCGCG
Found at i:22767330 original size:80 final size:80
Alignment explanation
Indices: 22767190--22767342 Score: 193
Period size: 80 Copynumber: 1.9 Consensus size: 80
22767180 CCGCTAATGC
* * * * * **
22767190 TCGATCTATAGCTGCGCTTTTTGAAAAACGCCGCTAATGCTGGATCTATAGCAGCATTTTTTGAA
1 TCGAGCTATAGCGGCGCTTTTTGAAAAACGCCACTAATGCTCGATCTATACCAGCATTTTTCAAA
22767255 AAGCGTCGTTAAAGG
66 AAGCGTCGTTAAAGG
* *
22767270 TCGAGCTATAGCGGCG-TTTTTTAAAAAGCGCCACTAATGCTCGATCTATACC-GACGTTTTTCA
1 TCGAGCTATAGCGGCGCTTTTTGAAAAA-CGCCACTAATGCTCGATCTATACCAG-CATTTTTCA
22767333 AAAAGCGTCG
64 AAAAGCGTCG
22767343 CTAGTGCTCG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
79 11 0.18
80 51 0.82
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (80 bp):
TCGAGCTATAGCGGCGCTTTTTGAAAAACGCCACTAATGCTCGATCTATACCAGCATTTTTCAAA
AAGCGTCGTTAAAGG
Found at i:22767379 original size:120 final size:120
Alignment explanation
Indices: 22767167--22767429 Score: 286
Period size: 120 Copynumber: 2.2 Consensus size: 120
22767157 TTTTTCGGCA
** * * *
22767167 TTTTTAAAAAATGCCGCTAATGCTCGATCTATAGCTGCGCTTTTTGAAAAACGCCGCTAATGCTG
1 TTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCCGCGCTTTTTCAAAAACGCCGCTAATGCTC
* * * *
22767232 GATCTATAGCAGCATTTTTTGAAAAGCG-TCGTTAAAGGTCGAGCTATAGCGGCGT
66 GATCTATAACAGCATTTTTTGAAAAGCGCT-GCTAAAGCTCGACCTATAGCGGCGT
* * *
22767287 TTTTTAAAAAGCGCCACTAATGCTCGATCTATA-CCGACG-TTTTTCAAAAAGCGTCGCTAGTGC
1 TTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCCG-CGCTTTTTCAAAAA-CGCCGCTAATGC
* * *
22767350 TCGATCTGTAAC-G-ATATTTTTGTAAAAGCGCTGCTAATGCTCGACCTATAGCGGTGT
64 TCGATCTATAACAGCAT-TTTTTG-AAAAGCGCTGCTAAAGCTCGACCTATAGCGGCGT
*
22767407 TTTTCT-AAAAGCGGCGCTAATGC
1 TTTT-TAAAAAGCGCCGCTAATGC
22767430 CACTAAAGCT
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
118 2 0.02
119 19 0.16
120 97 0.81
121 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (120 bp):
TTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCCGCGCTTTTTCAAAAACGCCGCTAATGCTC
GATCTATAACAGCATTTTTTGAAAAGCGCTGCTAAAGCTCGACCTATAGCGGCGT
Found at i:22767388 original size:262 final size:262
Alignment explanation
Indices: 22766805--22767389 Score: 567
Period size: 262 Copynumber: 2.2 Consensus size: 262
22766795 TTTTGTAACG
* * * * * *
22766805 TTTTTCAGAAAGTGCTGCTAATGCTCGATCTATAATGGTATTTTTCTAAAAGCGCCACTAATGCT
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGATATTTTTCTAAAAGCGCCGCTAATGC-
* * * * *
22766870 CGATCTATAG--T---G-GTGGTGCTTAATTTTTTTCAACAATTTTTAAAAAGCGCCGCTAATGG
65 C-A-CTAAAGCTTAAGGCGTTGTGCTTAAATTTTTTCAACAATTTTTAAAAAACGCCGCTAATGC
* * * * * *
22766929 TCAATCTATAGCGGCATTTTTTAAAAAGTGTCGCTAAAGGTCGAGCTATAGCGGCGTTTTTTAAA
128 TCAATCTATAGCGGCATTTTTGAAAAAGCGCCGCTAAAGCTCGAGCTATAGCAGCATTTTTTAAA
* * * * ** * *
22766994 AGTGCCACTAATGCTCGATCTATAGCGATGTTTTTCAAAAAGCACGGCTAATGCTCGATTTGTAA
193 AGCGCCACTAAAGCTCGAGCTATAGCGACGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAA
*
22767059 CGATA
258 CGACA
* * * * * * *
22767064 TTTTTCTAAAAGTGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCTGAAAGTGCCGCTAATGCC
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGATATTTTTCTAAAAGCGCCGCTAATGCC
** * *
22767129 ACTAAAGCTTAAGGCGTTGTGCTTAAATTTTTTCGGC-ATTTTTAAAAAATGCCGCTAATGCTCG
66 ACTAAAGCTTAAGGCGTTGTGCTTAAATTTTTTCAACAATTTTTAAAAAACGCCGCTAATGCTCA
* * *
22767193 ATCTATAGCTGCGC-TTTTTGAAAAA-CGCCGCTAATGCTGGATCTATAGCAGCATTTTTTGAAA
131 ATCTATAGC-G-GCATTTTTGAAAAAGCGCCGCTAAAGCTCGAGCTATAGCAGCATTTTTT-AAA
* ** * * * * *
22767256 AGCGTCGTTAAAGGTCGAGCTATAGCGGCGTTTTTTAAAAAGCGCCACTAATGCTCGATCTATAC
193 AGCGCCACTAAAGCTCGAGCTATAGCGACGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAA
*
22767321 CGACG
258 CGACA
* * * * *
22767326 TTTTTCAAAAAGCGTCGCTAGTGCTCGATCTGTAACGATATTTTTGTAAAAGCGCTGCTAATGC
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGATATTTTTCTAAAAGCGCCGCTAATGC
22767390 TCGACCTATA
Statistics
Matches: 260, Mismatches: 57, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
256 5 0.02
257 1 0.00
258 2 0.01
259 55 0.21
261 59 0.23
262 136 0.52
263 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (262 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGATATTTTTCTAAAAGCGCCGCTAATGCC
ACTAAAGCTTAAGGCGTTGTGCTTAAATTTTTTCAACAATTTTTAAAAAACGCCGCTAATGCTCA
ATCTATAGCGGCATTTTTGAAAAAGCGCCGCTAAAGCTCGAGCTATAGCAGCATTTTTTAAAAGC
GCCACTAAAGCTCGAGCTATAGCGACGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAACGA
CA
Found at i:22774213 original size:31 final size:31
Alignment explanation
Indices: 22774177--22774251 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
22774167 ATTAAAAGCC
22774177 CAATGACTTAAATTAAAACTTT-TAAATAGTT
1 CAATGACTTAAATTAAAA-TTTCTAAATAGTT
* *
22774208 CAATGACTTAAATGAAAATTTCTGAATAGTT
1 CAATGACTTAAATTAAAATTTCTAAATAGTT
*
22774239 CAGTGA-TTAAATT
1 CAATGACTTAAATT
22774252 GTAATGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 9 0.23
31 30 0.77
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (31 bp):
CAATGACTTAAATTAAAATTTCTAAATAGTT
Found at i:22774786 original size:21 final size:21
Alignment explanation
Indices: 22774762--22774807 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
22774752 GTTTTTAGGG
22774762 TTAGAGCTTTGCTAAAATAAT
1 TTAGAGCTTTGCTAAAATAAT
** *
22774783 TTAGATTTTTGTTAAAATAAT
1 TTAGAGCTTTGCTAAAATAAT
22774804 TTAG
1 TTAG
22774808 GATTAAGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (21 bp):
TTAGAGCTTTGCTAAAATAAT
Found at i:22775366 original size:21 final size:21
Alignment explanation
Indices: 22775317--22775366 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
22775307 CTAAAACCTT
*
22775317 AACCCTAAATTCTTTTAACAA
1 AACCCTAAATTATTTTAACAA
** *
22775338 AAATCTAAATTATTTTAGCAA
1 AACCCTAAATTATTTTAACAA
22775359 AACCCTAA
1 AACCCTAA
22775367 CCTTAAATAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (21 bp):
AACCCTAAATTATTTTAACAA
Found at i:22775485 original size:27 final size:27
Alignment explanation
Indices: 22775455--22775512 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
22775445 GTGTGCCACT
22775455 TATCAGATAAGCATC-ACCAGTGCCGCC
1 TATCAGATAAGCA-CAACCAGTGCCGCC
* *
22775482 TATCAGATAGGCACAACTAGTGCCGCC
1 TATCAGATAAGCACAACCAGTGCCGCC
22775509 TATC
1 TATC
22775513 TGACACCCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (27 bp):
TATCAGATAAGCACAACCAGTGCCGCC
Found at i:22780904 original size:7 final size:7
Alignment explanation
Indices: 22780894--22780920 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22780884 ATCCAATATC
22780894 CACATTT
1 CACATTT
22780901 CACATTT
1 CACATTT
22780908 CACATTT
1 CACATTT
22780915 CACATT
1 CACATT
22780921 AATCACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (7 bp):
CACATTT
Found at i:22781737 original size:14 final size:11
Alignment explanation
Indices: 22781708--22781732 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22781698 AATTTGTTTC
22781708 TTTTTCTATTA
1 TTTTTCTATTA
22781719 TTTTTCTATTA
1 TTTTTCTATTA
22781730 TTT
1 TTT
22781733 GTTTTGTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTCTATTA
Found at i:22781837 original size:19 final size:20
Alignment explanation
Indices: 22781801--22781838 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22781791 AATATAATTT
*
22781801 ATTATTTTATACATATGTAC
1 ATTATTTTATACACATGTAC
22781821 ATTATTTT-TACACATGTA
1 ATTATTTTATACACATGTA
22781839 AACAACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTATTTTATACACATGTAC
Found at i:22788415 original size:20 final size:20
Alignment explanation
Indices: 22788390--22788439 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
22788380 CTCTAGTTTT
22788390 GGCAAAGGTAGGATCTCAAG
1 GGCAAAGGTAGGATCTCAAG
22788410 GGCAAAGGTAGGATCTCAAG
1 GGCAAAGGTAGGATCTCAAG
* *
22788430 TGCATAGGTA
1 GGCAAAGGTA
22788440 TTGATGGCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.18
Consensus pattern (20 bp):
GGCAAAGGTAGGATCTCAAG
Found at i:22788904 original size:27 final size:26
Alignment explanation
Indices: 22788874--22788934 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
22788864 ATTTACTAAA
22788874 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACC-TT
* *
22788901 ATA-CCCTTAGGTGCAAAATTACCTT
1 ATACCCCTAAGATGCAAAATTACCTT
22788926 ATACCCCTA
1 ATACCCCTA
22788935 TGGTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 7 0.24
26 19 0.66
27 3 0.10
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (26 bp):
ATACCCCTAAGATGCAAAATTACCTT
Found at i:22789109 original size:28 final size:28
Alignment explanation
Indices: 22789038--22789143 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 28
22789028 GAGGAAGCGT
*
22789038 TCTGGTGGCTTTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* * *
22789065 TCTGGTGGCTTTGCCACAAATATTTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
22789093 TCTAGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
22789120 TCTGGTGACTCTGTCAC-AATATCT
1 TCTGGTGGCTCTGCCACAAATATCT
22789144 ATTATGGCAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 54 0.78
28 15 0.22
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:22799311 original size:9 final size:9
Alignment explanation
Indices: 22799297--22799424 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
22799287 ATGTATTAGT
22799297 TAAGTTATG
1 TAAGTTATG
22799306 TAAGTTGTTATG
1 TAA---GTTATG
*
22799318 TATGTTATG
1 TAAGTTATG
*
22799327 TGAGTTATG
1 TAAGTTATG
*
22799336 TAAATTATG
1 TAAGTTATG
22799345 TAAGTTATG
1 TAAGTTATG
*
22799354 TGAGTTATG
1 TAAGTTATG
22799363 TAAGTTGTTATG
1 TAA---GTTATG
*
22799375 TAAATTATG
1 TAAGTTATG
*
22799384 TAAGTTATA
1 TAAGTTATG
*
22799393 TGAGTTATG
1 TAAGTTATG
22799402 TAAGTTATG
1 TAAGTTATG
* *
22799411 TAATTTATT
1 TAAGTTATG
22799420 TAAGT
1 TAAGT
22799425 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:22799424 original size:57 final size:57
Alignment explanation
Indices: 22799297--22799424 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
22799287 ATGTATTAGT
** * *
22799297 TAAGTTATGTAAGTTGTTATGTATGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
22799354 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
22799411 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
22799425 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:22803509 original size:41 final size:41
Alignment explanation
Indices: 22803414--22803776 Score: 229
Period size: 41 Copynumber: 8.9 Consensus size: 41
22803404 CATTTGGTCC
* * *
22803414 TAAAAACGCCGCTATTGAT-TAGTTTTAGTGGAGTTTTA-A
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * *
22803453 CAAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTTTACA
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * *
22803494 TAAAAACGCCGCTATTT-TCCCAGTTTTTACTGGCG-TTTGGA
1 TAAAAACGCCGCTATTTAT-CTA-TTTTTAGTGGCGTTTTAGA
* * * * *
22803535 CAAAAACGCCACTATTTCTCTGCTTTTTAGTGGCGTTTTGGA
1 TAAAAACGCCGCTATTTATCT-ATTTTTAGTGGCGTTTTAGA
* * * * * * **
22803577 TGAAAACGCCGCTATTGAT-AACTTTTAGGGGCATTTGGGA
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * * ** *
22803617 CAAAAATGCAGCTATTTCCCCAGTTTTTAGTGGCG-TTTACG-
1 TAAAAACGCCGCTATTTATCTA-TTTTTAGTGGCGTTTTA-GA
* * * **
22803658 TGAAAACGACGCTATTGATCCGTTTTTAGTGGCGTTTTAGA
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * * * * *
22803699 TAAAACCACCGCTATTGATATGTTTTTAGTGGCATTTTAGA
1 TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
* * * *
22803740 CAAAAACGCTGCTATTTCTC-ATTTTCTTGTGGCGTTT
1 TAAAAACGCCGCTATTTATCTATTTT-TAGTGGCGTTT
22803777 GTGAGTAAAC
Statistics
Matches: 246, Mismatches: 65, Indels: 24
0.73 0.19 0.07
Matches are distributed among these distances:
39 16 0.07
40 62 0.25
41 126 0.51
42 42 0.17
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (41 bp):
TAAAAACGCCGCTATTTATCTATTTTTAGTGGCGTTTTAGA
Found at i:22803622 original size:123 final size:122
Alignment explanation
Indices: 22803495--22803757 Score: 298
Period size: 123 Copynumber: 2.1 Consensus size: 122
22803485 CGTTTTACAT
* * * ** *
22803495 AAAAACGCCGCTATTTTCCCAGTTTTTACTGGCGTTTGGAC-AAAAACGCCACTATTTCTCTGCT
1 AAAAACGCAGCTATTTCCCCAGTTTTTACTGGCGTTT--ACGAAAAACGACACTATTGATCCG-T
* * *
22803559 TTTTAGTGGCGTTTTGGATGAAAA-CGCCGCTATTGATA-ACTTTTAGGGGCATTTGGGAC
63 TTTTAGTGGCGTTTTAGAT-AAAACCACCGCTATTGATATACTTTTAGGGGCATTTGAGAC
* * * *
22803618 AAAAATGCAGCTATTTCCCCAGTTTTTAGTGGCGTTTACGTGAAAACGACGCTATTGATCCGTTT
1 AAAAACGCAGCTATTTCCCCAGTTTTTACTGGCGTTTACG-AAAAACGACACTATTGATCCGTTT
** * *
22803683 TTAGTGGCGTTTTAGATAAAACCACCGCTATTGATATGTTTTTAGTGGCATTTTAGAC
65 TTAGTGGCGTTTTAGATAAAACCACCGCTATTGATATACTTTTAGGGGCATTTGAGAC
*
22803741 AAAAACGCTGCTATTTC
1 AAAAACGCAGCTATTTC
22803758 TCATTTTCTT
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
121 6 0.05
122 32 0.27
123 79 0.68
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (122 bp):
AAAAACGCAGCTATTTCCCCAGTTTTTACTGGCGTTTACGAAAAACGACACTATTGATCCGTTTT
TAGTGGCGTTTTAGATAAAACCACCGCTATTGATATACTTTTAGGGGCATTTGAGAC
Found at i:22808019 original size:24 final size:24
Alignment explanation
Indices: 22807954--22808071 Score: 96
Period size: 24 Copynumber: 4.8 Consensus size: 24
22807944 GCTATGATCG
* *
22807954 GTAAGCTCCTTCTGAGCTGATGAATA
1 GTAAGCT-CTTATGAGCTGA-GAACA
22807980 GTAAGCT-TTATCGAGCTG-GAAACA
1 GTAAGCTCTTAT-GAGCTGAG-AACA
* *
22808004 GTAAGCTCTGATGAGCTGAGAATA
1 GTAAGCTCTTATGAGCTGAGAACA
* *
22808028 GTAAGCTCTTATGAGTTGATATATCA
1 GTAAGCTCTTATGAGCTGAGA-A-CA
* *
22808054 ATAAGCTCATATGAGCTG
1 GTAAGCTCTTATGAGCTG
22808072 TGGTGAGTCT
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
23 1 0.01
24 40 0.53
25 11 0.15
26 23 0.31
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (24 bp):
GTAAGCTCTTATGAGCTGAGAACA
Found at i:22808059 original size:50 final size:49
Alignment explanation
Indices: 22807966--22808071 Score: 121
Period size: 50 Copynumber: 2.1 Consensus size: 49
22807956 AAGCTCCTTC
*
22807966 TGAGCTGATGAATAGTAAGCTTTATCGAGCTGGAAACAGTAAGCTC-TGA
1 TGAGCTGATGAATAGTAAGCTTTATCGAGCTGGAAACAATAAGCTCAT-A
*
22808015 TGAGCTGA-GAATAGTAAGCTCTTAT-GAG-TTGATATATCAATAAGCTCATA
1 TGAGCTGATGAATAGTAAGCT-TTATCGAGCTGGA-A-A-CAATAAGCTCATA
22808065 TGAGCTG
1 TGAGCTG
22808072 TGGTGAGTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
47 3 0.06
48 16 0.32
49 13 0.26
50 17 0.34
51 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (49 bp):
TGAGCTGATGAATAGTAAGCTTTATCGAGCTGGAAACAATAAGCTCATA
Found at i:22809653 original size:19 final size:20
Alignment explanation
Indices: 22809629--22809666 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
22809619 GGTACCACCA
22809629 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
22809648 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
22809667 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:22810011 original size:93 final size:93
Alignment explanation
Indices: 22809896--22810064 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
22809886 GCCCTTAAGT
*
22809896 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
22809960 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
22809989 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
22810054 CGAGTTCGGAT
66 CGAGTTCGGAT
22810065 TCTCAACCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22810062 original size:46 final size:47
Alignment explanation
Indices: 22809891--22810063 Score: 212
Period size: 46 Copynumber: 3.7 Consensus size: 47
22809881 AACCCGCCCT
* * *
22809891 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * *
22809937 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* *
22809985 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
22810030 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22810064 TTCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.54
47 31 0.29
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:22820299 original size:137 final size:137
Alignment explanation
Indices: 22820052--22820731 Score: 993
Period size: 137 Copynumber: 5.0 Consensus size: 137
22820042 ATTAGGTTTT
* * ** * * *
22820052 TGTAATTTATAGC-TCTAATCTATTCCACTAAAATTTTAGGGAAATAAGATTTGCTATCTTTAAC
1 TGTAACTTATAGCTTC-AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGC
*
22820116 CTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTGCAGAGAG
65 CTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAG
22820181 ATAAGATC
130 ATAAGATC
* * *
22820189 TGTAACTTATAGCTTCAATCTGTTCTACTGCAACTTCAGGGAAATAATATTTGCTATCTTTAACC
1 TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* * * *
22820254 TGCTCCGCTGCAACATCAGGGAGATAAGACTTGTTTTGATTTGCTCTAATGCAAATTCAGAGAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
22820319 TAAGATC
131 TAAGATC
* * * **
22820326 TATAACTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAAAAAGATTTGCTATCTTCGGCC
1 TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* *
22820391 TGCTCCGCTGCAACTTCATGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGATAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
22820456 TAAGATC
131 TAAGATC
* * * * *
22820463 TGTAATTTATAGCTTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTCTGGCC
1 TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* * *
22820528 TGTTCCGCTGTAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTTTACTGCAACTTCAGAGAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
22820593 TAAGATC
131 TAAGATC
* * * *
22820600 TGTAATTTATAGCTTCAATCTGTTCCACTGTAACTTTAGGGAAATAAGATTTACTATCTTTAGCC
1 TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* ** * *
22820665 TGCTCCACTGCAGTTTCAGGGAGATAAGACTTGTTTTGATCCGCTCTACTGCAACTTCAGAAAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
22820730 TA
131 TA
22820732 GAATCATTTG
Statistics
Matches: 487, Mismatches: 55, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
137 485 1.00
138 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (137 bp):
TGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
TAAGATC
Found at i:22833241 original size:32 final size:33
Alignment explanation
Indices: 22833205--22833270 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
22833195 TACATATTAA
* *
22833205 AGGAATAAATAAAGGAA-AAAAGAATTAGAATC
1 AGGAATAAATAAAGAAATAAAAAAATTAGAATC
*
22833237 AGGAATAAATAAAGAAATAAAAAAATTATAATC
1 AGGAATAAATAAAGAAATAAAAAAATTAGAATC
22833270 A
1 A
22833271 AACTGATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.65, C:0.03, G:0.14, T:0.18
Consensus pattern (33 bp):
AGGAATAAATAAAGAAATAAAAAAATTAGAATC
Found at i:22839562 original size:30 final size:30
Alignment explanation
Indices: 22839526--22839603 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
22839516 CTTGACATAT
* * *
22839526 ACTGGGCCGAAGCCTTTCGTTTAA-CGGTTC
1 ACTGGGCCGAAGCCTTTC-ATAAATCAGTTC
*
22839556 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCC-TTTCATAAATCAGTTC
22839587 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
22839604 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 20 0.48
31 22 0.52
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (30 bp):
ACTGGGCCGAAGCCTTTCATAAATCAGTTC
Found at i:22839674 original size:42 final size:42
Alignment explanation
Indices: 22839627--22839718 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
22839617 TGGCCCATAG
** ** *
22839627 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATAAAATACCAATGAATGTATGCAA
*
22839669 GCCCATTTCAATATCATATAAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATAAAATACCAATGAATGTATGCAA
22839711 GCCCATTT
1 GCCCATTT
22839719 AGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATAAAATACCAATGAATGTATGCAA
Found at i:22839941 original size:26 final size:26
Alignment explanation
Indices: 22839851--22839986 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
22839841 CTGGAGGCCT
22839851 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
22839875 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
22839900 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
***
22839926 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
22839952 CGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
22839978 AACCCTTTT
1 AGCCCTTTT
22839987 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.34
26 53 0.55
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:22839976 original size:52 final size:51
Alignment explanation
Indices: 22839851--22839986 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 51
22839841 CTGGAGGCCT
22839851 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
*
22839900 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
* *
22839952 CGCCCTTTTCAATAAACTGGGGCATAAACCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
22839987 GCACTTCCTC
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 10 0.12
51 24 0.30
52 34 0.43
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:22840831 original size:27 final size:27
Alignment explanation
Indices: 22840794--22840868 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
22840784 TATTCGTCAT
*
22840794 TTTACCATACAGGGG-TATTACGATCAC
1 TTTACCCTACAGGGGCT-TTACGATCAC
*
22840821 TTTACCCTACAGGGGCTTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGATCAC
22840848 TTTACCCTACAGGGGCTTTAC
1 TTTACCCTACAGGGGCTTTAC
22840869 AGTATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 44 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGATCAC
Found at i:22840964 original size:27 final size:26
Alignment explanation
Indices: 22840934--22841019 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 26
22840924 GTAAATCTAC
22840934 AAACCAAGGATATTTCAGTAATTTTGT
1 AAACCAAGG-TATTTCAGTAATTTTGT
*
22840961 AAACCAATGGTATTTCTA-TAATTTTTAT
1 AAACCAA-GGTATTTC-AGTAA-TTTTGT
* * *
22840989 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAA-GGTATTTCAGTAATTTTGT
22841017 AAA
1 AAA
22841020 TCAGGGGTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
27 16 0.33
28 18 0.38
29 14 0.29
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (26 bp):
AAACCAAGGTATTTCAGTAATTTTGT
Found at i:22841005 original size:29 final size:27
Alignment explanation
Indices: 22840938--22841031 Score: 73
Period size: 27 Copynumber: 3.4 Consensus size: 27
22840928 ATCTACAAAC
* * * *
22840938 CAAGGATATTTC-AGTAATTTTGTAAAC
1 CAAGGGTATTTCTA-TAACTTTATAAAT
* *
22840965 CAATGGTATTTCTATAATTTTTATAAAGT
1 CAAGGGTATTTCTATAA-CTTTATAAA-T
* *
22840994 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCTATAACTTTATAAAT
*
22841021 CAGGGGTATTT
1 CAAGGGTATTT
22841032 TGGTAATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
27 24 0.44
28 16 0.29
29 15 0.27
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTCTATAACTTTATAAAT
Found at i:22841047 original size:27 final size:27
Alignment explanation
Indices: 22840969--22841204 Score: 158
Period size: 27 Copynumber: 8.7 Consensus size: 27
22840959 GTAAACCAAT
** * *
22840969 GGTATTTCTATAATTTTTATAAAGTCAAG
1 GGTATTTCGGTAA-TTTTACAAA-TCAGG
* * **
22840998 GGTATTTCTGTAACTTTGTAAATCAGG
1 GGTATTTCGGTAATTTTACAAATCAGG
* *
22841025 GGTATTTTGGTAATTTTACAAAT-TGAG
1 GGTATTTCGGTAATTTTACAAATCAG-G
* * * *
22841052 GGTATTGCGGTAATTTCACAAACCAGT
1 GGTATTTCGGTAATTTTACAAATCAGG
* *
22841079 GGTATTTTGGTAATTTTACAAA-CTGGG
1 GGTATTTCGGTAATTTTACAAATC-AGG
* * *
22841106 GGTATTTTGGTAATTTTACAAGTC-GAA
1 GGTATTTCGGTAATTTTACAAATCAG-G
*
22841133 GGTATTTCAGTAATTTTACAAATC-GAG
1 GGTATTTCGGTAATTTTACAAATCAG-G
* * *
22841160 GGTATTTCAGTACTTTTACAAA-CTAAG
1 GGTATTTCGGTAATTTTACAAATC-AGG
*
22841187 GGTATTTCGATAATTTTA
1 GGTATTTCGGTAATTTTA
22841205 GTAAACTAAA
Statistics
Matches: 168, Mismatches: 32, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.02
27 143 0.85
28 9 0.05
29 12 0.07
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCAGG
Found at i:22841116 original size:81 final size:81
Alignment explanation
Indices: 22840996--22841204 Score: 226
Period size: 81 Copynumber: 2.6 Consensus size: 81
22840986 TATAAAGTCA
* * * *
22840996 AGGGTATTTCTGTAACTTTGTA-AATC-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTG
1 AGGGTATTTCAGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTG
*
22841059 CGGTAATTTCACAAA-CC
64 CAGTAATTTCACAAATCC
** * * *
22841076 AGTGGTATTTTGGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTACAAGTCGAAGGTATTTC
1 AG-GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTGC
* *
22841141 AGTAATTTTACAAATCG
65 AGTAATTTCACAAATCC
* * * *
22841158 AGGGTATTTCAGTACTTTTACAAACTAAGGGTATTTCGATAATTTTA
1 AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTA
22841205 GTAAACTAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.02
80 8 0.07
81 94 0.88
82 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTGCA
GTAATTTCACAAATCC
Found at i:22841166 original size:54 final size:54
Alignment explanation
Indices: 22840919--22841204 Score: 186
Period size: 54 Copynumber: 5.3 Consensus size: 54
22840909 TACAAGGGTG
* * * * * * **
22840919 TTTTGGTAAATCTACAAACCAAGGATATTTCAGTAATTTTGTAAACCA-ATGGTA
1 TTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGA-GGTA
* * * * * ** * *
22840973 TTTCT-ATAATTTTTATAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCGAGGGTATTTCGGTAATTTTACAAACCAGAGGTA
* * * *
22841029 TTTTGGTAATTTTACAAATTGAGGGTATTGCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGAGGTA
* * **
22841083 TTTTGGTAATTTTACAAA-CTGGGGGTATTTTGGTAATTTTACAAGTC-GAAGGTA
1 TTTTGGTAATTTTACAAATC-GAGGGTATTTCGGTAATTTTACAAACCAG-AGGTA
** * * *
22841137 TTTCAGTAATTTTACAAATCGAGGGTATTTCAGTACTTTTACAAACTA-AGGGTA
1 TTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGA-GGTA
* *
22841191 TTTCGATAATTTTA
1 TTTTGGTAATTTTA
22841205 GTAAACTAAA
Statistics
Matches: 181, Mismatches: 41, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
53 2 0.01
54 127 0.70
55 17 0.09
56 35 0.19
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGAGGTA
Found at i:22843096 original size:25 final size:25
Alignment explanation
Indices: 22843060--22843112 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
22843050 CATCGTATTC
* * *
22843060 GCTCTTTCGAGCT-ATGATCGGTAA
1 GCTCCTTCGAGCTAATGAACAGTAA
22843084 GCTCCTTCTGAGCTAATGAACAGTAA
1 GCTCCTTC-GAGCTAATGAACAGTAA
22843110 GCT
1 GCT
22843113 TTATCAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 5 0.21
26 12 0.50
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (25 bp):
GCTCCTTCGAGCTAATGAACAGTAA
Found at i:22843146 original size:24 final size:25
Alignment explanation
Indices: 22843101--22843162 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
22843091 CTGAGCTAAT
*
22843101 GAACAGTAAGCT-TTATCAAGCT-A
1 GAACAGTAAGCTCTGATCAAGCTGA
*
22843124 GAAACAGTAAGCTCTGA-CGAGCTGA
1 G-AACAGTAAGCTCTGATCAAGCTGA
*
22843149 GAATAGTAAGCTCT
1 GAACAGTAAGCTCT
22843163 TATGAGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 1 0.03
24 28 0.85
25 4 0.12
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (25 bp):
GAACAGTAAGCTCTGATCAAGCTGA
Found at i:22851233 original size:14 final size:14
Alignment explanation
Indices: 22851211--22851245 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
22851201 TAATCACTTT
*
22851211 TTTATTAAATTTAA
1 TTTAATAAATTTAA
22851225 TTTAATAAATTTAA
1 TTTAATAAATTTAA
22851239 TTTAATA
1 TTTAATA
22851246 TTAAGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTAATAAATTTAA
Found at i:22872290 original size:15 final size:15
Alignment explanation
Indices: 22872267--22872300 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22872257 GATAGATATA
22872267 TTTTATTTTATTTTG
1 TTTTATTTTATTTTG
* *
22872282 TTTTCTTTTGTTTTG
1 TTTTATTTTATTTTG
22872297 TTTT
1 TTTT
22872301 TTCAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.03, G:0.09, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTTTG
Found at i:22901402 original size:46 final size:46
Alignment explanation
Indices: 22901335--22901505 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
22901325 AACCCGCCCC
*
22901335 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCATCCA
* * * * * *
22901381 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACG-TTCGCATCCA
* * *
22901427 TTTCA-CGAACTCGGACTCAACTCAACGAGTTC-AGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGA-ACGTTCGCATCCA
*
22901474 TAGGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
22901506 GATGCTCAAC
Statistics
Matches: 99, Mismatches: 19, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
45 1 0.01
46 64 0.65
47 32 0.32
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCATCCA
Found at i:22901452 original size:93 final size:93
Alignment explanation
Indices: 22901340--22901510 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
22901330 GCCCCTAAGT
*
22901340 GAACTCGGACTCAACTCAACGAGCTC-GAACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAG-ACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22901404 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* *
22901433 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22901498 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22901511 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:22911101 original size:35 final size:36
Alignment explanation
Indices: 22911021--22911117 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 36
22911011 TTTCAGTTTC
* * *
22911021 ATTTAGTAACATTCAATTATTCAGTAGCAATTAGTT
1 ATTTAGTAACAATCAATTACTCAGTAGCAATTAATT
* * *
22911057 ATTCAGTAACAATCATTTGCTCAGTAGCAA-TAATT
1 ATTTAGTAACAATCAATTACTCAGTAGCAATTAATT
* *
22911092 ATTTAGTAACGATCAATTATTCAGTA
1 ATTTAGTAACAATCAATTACTCAGTA
22911118 ACATTCAGTC
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
35 25 0.50
36 25 0.50
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (36 bp):
ATTTAGTAACAATCAATTACTCAGTAGCAATTAATT
Found at i:22911357 original size:44 final size:44
Alignment explanation
Indices: 22911306--22911397 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
22911296 CTGGAGTAAC
*
22911306 AGTAACAGTACAACACACA-AGGTGCCTCATCGACTTAAAGTCGA
1 AGTAACAGTACAACACACATA-GTGCCTCATCGACTCAAAGTCGA
* ** *
22911350 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
22911394 AGTA
1 AGTA
22911398 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
Found at i:22918343 original size:25 final size:25
Alignment explanation
Indices: 22918281--22918343 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 25
22918271 TATTAAATTA
* *
22918281 TTATTATTATTATTATTTATTATGG
1 TTATTTTTATTAATATTTATTATGG
**
22918306 TT-TTTACATTTAATATTTATTAAT-G
1 TTATTTTTA-TTAATATTTATT-ATGG
22918331 TTATTTTTATTAA
1 TTATTTTTATTAA
22918344 ATTGATATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
24 3 0.10
25 20 0.69
26 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (25 bp):
TTATTTTTATTAATATTTATTATGG
Found at i:22920280 original size:12 final size:12
Alignment explanation
Indices: 22920263--22920287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22920253 GTCGACTACT
22920263 GTTACTGTTACC
1 GTTACTGTTACC
22920275 GTTACTGTTACC
1 GTTACTGTTACC
22920287 G
1 G
22920288 ATTCGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:22920315 original size:45 final size:45
Alignment explanation
Indices: 22920265--22920373 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
22920255 CGACTACTGT
* * * *
22920265 TACTGTTACCGTTACTGTTACCGATTCGGCATTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTATGTCGAA
* ** * *
22920310 TACTGTTACTGTTACCGTTATTGATTTAGCACTTTGTATGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTATGTCGAA
22920355 TACTGTTACTGTTACTGTT
1 TACTGTTACTGTTACTGTT
22920374 CCAGATTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTATGTCGAA
Found at i:22920697 original size:19 final size:19
Alignment explanation
Indices: 22920549--22920740 Score: 95
Period size: 18 Copynumber: 10.6 Consensus size: 19
22920539 CAACTAATTA
*
22920549 TTACTGAATAA-TTGACTG
1 TTACTGAATAACTTGATTG
* * *
22920567 TTACCGGATAA-TTGACTG
1 TTACTGAATAACTTGATTG
* * *
22920585 TTAATGGAT-A-TTAGACTG
1 TTACTGAATAACTT-GATTG
* *
22920603 TTACTGAATAAC-TGAATA
1 TTACTGAATAACTTGATTG
**
22920621 TTACTGAATAA-TTGATCA
1 TTACTGAATAACTTGATTG
**
22920639 TTAGAGAATAAC-TGATT-
1 TTACTGAATAACTTGATTG
* *
22920656 TTCGCTGAATGAA--TGACTG
1 TT-ACTGAAT-AACTTGATTG
*
22920675 TTACTGAATAACTTAATTG
1 TTACTGAATAACTTGATTG
*
22920694 TTACTGAATATC-TGATT-
1 TTACTGAATAACTTGATTG
*
22920711 TTACTGAATAA-TTGACTG
1 TTACTGAATAACTTGATTG
*
22920729 TTACTGGATAAC
1 TTACTGAATAAC
22920741 CGATCAATTG
Statistics
Matches: 136, Mismatches: 25, Indels: 25
0.73 0.13 0.13
Matches are distributed among these distances:
17 21 0.15
18 94 0.69
19 21 0.15
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
TTACTGAATAACTTGATTG
Found at i:22920716 original size:17 final size:19
Alignment explanation
Indices: 22920673--22920740 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 19
22920663 AATGAATGAC
22920673 TGTTACTGAATAACTTAAT
1 TGTTACTGAATAACTTAAT
* *
22920692 TGTTACTGAATATC-TGAT
1 TGTTACTGAATAACTTAAT
* *
22920710 T-TTACTGAATAA-TTGAC
1 TGTTACTGAATAACTTAAT
*
22920727 TGTTACTGGATAAC
1 TGTTACTGAATAAC
22920741 CGATCAATTG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 14 0.34
18 14 0.34
19 13 0.32
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (19 bp):
TGTTACTGAATAACTTAAT
Found at i:22922434 original size:13 final size:13
Alignment explanation
Indices: 22922416--22922456 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
22922406 GTCTTCAAAA
22922416 AAAAATTAA-AATT
1 AAAAATTAATAA-T
22922429 AAAAA-TAATAAT
1 AAAAATTAATAAT
22922441 AAAAA-TAATAAT
1 AAAAATTAATAAT
22922453 AAAA
1 AAAA
22922457 TAAATAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATTAATAAT
Found at i:22922443 original size:12 final size:12
Alignment explanation
Indices: 22922428--22922456 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
22922418 AAATTAAAAT
22922428 TAAAAATAATAA
1 TAAAAATAATAA
22922440 TAAAAATAATAA
1 TAAAAATAATAA
22922452 TAAAA
1 TAAAA
22922457 TAAATAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:22922450 original size:15 final size:15
Alignment explanation
Indices: 22922422--22922463 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
22922412 AAAAAAAAAT
22922422 TAAAATTAAA-AATAA
1 TAAAA-TAAATAATAA
22922437 TAATAA-AAATAATAA
1 TAA-AATAAATAATAA
22922452 TAAAATAAATAA
1 TAAAATAAATAA
22922464 ACTCAAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.21
15 17 0.71
16 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAATAAATAATAA
Found at i:22929484 original size:18 final size:18
Alignment explanation
Indices: 22929440--22929549 Score: 103
Period size: 18 Copynumber: 6.1 Consensus size: 18
22929430 AGTTTCATTT
* *
22929440 AGTAACATTCAATTATTC
1 AGTAACAATCAGTTATTC
* * *
22929458 AATAGCAATTAGTTATTC
1 AGTAACAATCAGTTATTC
* **
22929476 AGTAACAATCATTTGCTC
1 AGTAACAATCAGTTATTC
*
22929494 AGTAGCAATCAGTTATTC
1 AGTAACAATCAGTTATTC
* *
22929512 AGTAACGATCAATTATTC
1 AGTAACAATCAGTTATTC
* *
22929530 AGTAACAGTCAGTCATTC
1 AGTAACAATCAGTTATTC
22929548 AG
1 AG
22929550 ACTTTTATTT
Statistics
Matches: 70, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (18 bp):
AGTAACAATCAGTTATTC
Found at i:22936567 original size:20 final size:21
Alignment explanation
Indices: 22936537--22936582 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
22936527 TAAGACATGG
*
22936537 CAGGTGGTGGTGGGCCTGCCA
1 CAGGCGGTGGTGGGCCTGCCA
22936558 -AGGCGGTGGTGGGCCTGCCA
1 CAGGCGGTGGTGGGCCTGCCA
22936578 CAGGC
1 CAGGC
22936583 TGCACTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.11, C:0.26, G:0.48, T:0.15
Consensus pattern (21 bp):
CAGGCGGTGGTGGGCCTGCCA
Found at i:22936753 original size:19 final size:17
Alignment explanation
Indices: 22936723--22936772 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
22936713 GGGTAGGAAG
22936723 AAAAAAGGAGAAGAAAA
1 AAAAAAGGAGAAGAAAA
22936740 AAAAAA-GAGAAGAAGAA
1 AAAAAAGGAGAAGAA-AA
* *
22936757 AAGACAAGAAGAAGAA
1 AA-AAAAGGAGAAGAA
22936773 GGAGAAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 8 0.29
17 10 0.36
18 3 0.11
19 7 0.25
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAAAGGAGAAGAAAA
Found at i:22936773 original size:19 final size:17
Alignment explanation
Indices: 22936719--22936772 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 17
22936709 TTTCGGGTAG
*
22936719 GAAG-AAAAAAGGAGAA
1 GAAGAAAAAAAAGAGAA
22936735 GAA-AAAAAAAAGAGAA
1 GAAGAAAAAAAAGAGAA
* *
22936751 GAAGAAAAGACA-AGAA
1 GAAGAAAAAAAAGAGAA
22936767 GAAGAA
1 GAAGAA
22936773 GGAGAAAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 27 0.82
17 6 0.18
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAGAAAAAAAAGAGAA
Done.