Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold333
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: 853475
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:1069 original size:58 final size:57
Alignment explanation
Indices: 954--1240 Score: 319
Period size: 57 Copynumber: 5.0 Consensus size: 57
944 CATTCCTCAC
* * * *
954 CCTTCAAAAGTCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTAGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
*
1011 CCTTTAAAAGCCCACAAGTTAGTGGCATCTTTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCATC-TTTTTCAAAGCCCACAAGTCAGTGGCAA
* **
1069 CCTTTAAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCCTT
1 CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGG-CAA
** * * *
1127 TTTTTCAAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAGCCCACAAATCAGTGGC-A
1 CCTTT-AAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
** * * * * *
1182 CCTTTTTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCA
1 CC--TTT-AAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCA
1241 CTCTTTTTCT
Statistics
Matches: 197, Mismatches: 25, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
56 1 0.01
57 95 0.48
58 60 0.30
59 41 0.21
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (57 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:1111 original size:87 final size:87
Alignment explanation
Indices: 960--1240 Score: 336
Period size: 87 Copynumber: 3.2 Consensus size: 87
950 TCACCCTTCA
* ** * * *
960 AAAGTCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTAGCAAC-CTTTAAAAGCCC
1 AAAGCCCACAAGTCAGTGGCA-ACCTTTCAAAGCCCACAAGTCAGTGGCAACTTTTTCAAAGCCC
*
1024 ACAAGTTAGTGGCATCTTTTTTC
65 ACAAGTCAGTGGCATCTTTTTTC
* * *
1047 AAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACTTTTTCAAAGCCCA
*
1112 CAAGTCAGTGGCCT-TTTTTTC
66 CAAGTCAGTGGCATCTTTTTTC
* * *
1133 AAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCTTTTTCCGAAGCC
1 -AAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACTTTTT-CAAAGCC
* *
1197 CACAAGTCGGTGGCATC-TTTTCC
64 CACAAGTCAGTGGCATCTTTTTTC
* * *
1220 AAAGTCCACAACTCCGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
1241 CTCTTTTTCT
Statistics
Matches: 168, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
86 76 0.45
87 92 0.55
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (87 bp):
AAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACTTTTTCAAAGCCCA
CAAGTCAGTGGCATCTTTTTTC
Found at i:1344 original size:32 final size:33
Alignment explanation
Indices: 1297--1379 Score: 118
Period size: 31 Copynumber: 2.6 Consensus size: 33
1287 TTAAGCCCAT
* *
1297 AAGTTAGTGGC-ACCCTTTTCAAAAGCCCACAC
1 AAGTCAGTGGCAACCCTTCTCAAAAGCCCACAC
*
1329 AAGTC-GTGGCAACCC-TCTCTAAAGCCCACAC
1 AAGTCAGTGGCAACCCTTCTCAAAAGCCCACAC
1360 AAGTCAGTGGCAACCCTTCT
1 AAGTCAGTGGCAACCCTTCT
1380 AAGCCCAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
31 24 0.53
32 18 0.40
33 3 0.07
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (33 bp):
AAGTCAGTGGCAACCCTTCTCAAAAGCCCACAC
Found at i:1386 original size:30 final size:31
Alignment explanation
Indices: 1318--1386 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
1308 ACCCTTTTCA
1318 AAAGCCCACACAAGTCGTGGCAACCCTCTCT
1 AAAGCCCACACAAGTCGTGGCAACCCTCTCT
1349 AAAGCCCACACAAGTCAGTGGCAACCCT-TCT
1 AAAGCCCACACAAGTC-GTGGCAACCCTCTCT
1380 -AAGCCCA
1 AAAGCCCA
1387 ATATCGCTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
30 7 0.19
31 19 0.51
32 11 0.30
ACGTcount: A:0.32, C:0.38, G:0.16, T:0.14
Consensus pattern (31 bp):
AAAGCCCACACAAGTCGTGGCAACCCTCTCT
Found at i:1500 original size:49 final size:49
Alignment explanation
Indices: 1379--1666 Score: 327
Period size: 49 Copynumber: 5.9 Consensus size: 49
1369 GCAACCCTTC
* * *
1379 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGACATCATTTCTCTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C----CT-TCATCTT
*
1434 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
1483 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T--TC--
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
1527 -AAGTCCAATATCGTTGGCCTTGAATCCGCATATTGGCAACTTCTTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
1575 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCTTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
1624 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1667 TAAGTCCAAT
Statistics
Matches: 208, Mismatches: 19, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
43 34 0.16
44 1 0.00
46 4 0.02
48 1 0.00
49 128 0.62
50 2 0.01
54 1 0.00
55 37 0.18
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:1596 original size:92 final size:92
Alignment explanation
Indices: 1439--1662 Score: 286
Period size: 92 Copynumber: 2.4 Consensus size: 92
1429 ATCTTTAAGC
* * *
1439 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCATCTTCAAGTCCAATATAGCTGGCCT
*
1504 TGAATCAGCACATTGGCACCTTCAAGT
66 TGAATCAGCACATTGGCAACTTCAAGT
* * * *
1531 CCAATATCGTTGGCCTTGAATCCGCATATTGGCAACTTCTTCTTCAAGTCCAATATCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCATCTTCAAGTCCAATATAGCTGGCCT
*
1596 TGAATCAGCATATTGGCAACTTCTTCTTTAAGT
66 TGAATCAGCACATTGGCAA---CTTC---AAGT
* * *
1629 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1663 CCTTTAAGTC
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
92 75 0.67
95 4 0.04
98 33 0.29
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCATCTTCAAGTCCAATATAGCTGGCCT
TGAATCAGCACATTGGCAACTTCAAGT
Found at i:2502 original size:13 final size:13
Alignment explanation
Indices: 2484--2508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2474 CATAAAGTGT
2484 TGTATCGATACAA
1 TGTATCGATACAA
2497 TGTATCGATACA
1 TGTATCGATACA
2509 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2506 original size:33 final size:33
Alignment explanation
Indices: 2464--2530 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2454 TTCAACGATT
2464 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2497 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2530 T
1 T
2531 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2660 original size:52 final size:52
Alignment explanation
Indices: 2604--2732 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2594 CACTGATCTT
*
2604 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
2656 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2708 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2733 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:10545 original size:18 final size:18
Alignment explanation
Indices: 10501--10537 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10491 AGGGCATCCA
10501 AAATAAAAAATAAATAAAT
1 AAAT-AAAAATAAATAAAT
10520 AAATAAAAATAAA-AAAT
1 AAATAAAAATAAATAAAT
10537 A
1 A
10538 GATGAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 9 0.50
19 4 0.22
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATAAAAATAAATAAAT
Found at i:12164 original size:131 final size:130
Alignment explanation
Indices: 12014--12444 Score: 374
Period size: 131 Copynumber: 3.3 Consensus size: 130
12004 TGGTCACCCA
* * * *
12014 TAATTAGTTCGTATGGTTTTTTCCCGGCCAA-CCCTTTATCGACTTAGGTTTTGCCTTGGTCACC
1 TAATTGGTTTGTATGGTTTTTTCCTGGCCAACCCCTTT-TTGACTTAGGTTTTGCCTTGGTCACC
** * *
12078 TTAGTTGGTTCGTATGGTTTCATCTCGGCCAACCCATTTTCAAATTAGGTTTCA-CTGTAGTCAC
65 AAAGTTGGTTCGTATGGTTTCATCTCGCCCAACCC-TTTTCAAATCAGGTTTCACCT-TAGTCAC
12142 CTT
128 CTT
* * * *
12145 TAGTTGGTTTGTATGGTTTTGTT-TTGGCCAACCCCTTTTTGACTTCA-GTTTTACCTTGATCAC
1 TAATTGGTTTGTATGGTTTT-TTCCTGGCCAACCCCTTTTTGACTT-AGGTTTTGCCTTGGTCAC
* ** * * *
12208 CAAAGTTGGTTCGTATGGTTTCATCTTGCCCAACCCTTTTTGACTCAGGTTTCACCTTGGTCACT
64 CAAAGTTGGTTCGTATGGTTTCATCTCGCCCAACCCTTTTCAAATCAGGTTTCACCTTAGTCACC
12273 TT
129 TT
* ** * *
12275 TAATTGGTTTGTAGGGTTTCATCCTAGCCAACCCCTTTTTAACTTAGGTTTTGCCTTGGTCACCC
1 TAATTGGTTTGTATGGTTTTTTCCTGGCCAACCCCTTTTTGACTTAGGTTTTGCCTTGGTCA--C
* * * * * * * * *
12340 CTAA-TTAGTTCATATGGTTTCTTC-CTGGCCAACTCTTTTCTAACTCAGG-TTCGCCTTGGTCA
64 CAAAGTTGGTTCGTATGGTTTCATCTC-GCCCAACCCTTTTC-AAATCAGGTTTCACCTTAGTCA
12402 CCTT
127 CCTT
* ** * * * *
12406 TAGTTGGTGCGTATAGTTTTGTCTTGGCTAA-CCCTTTTT
1 TAATTGGTTTGTATGGTTTTTTCCTGGCCAACCCCTTTTT
12445 AAACAGAAGT
Statistics
Matches: 242, Mismatches: 48, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
129 2 0.01
130 79 0.33
131 141 0.58
132 20 0.08
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.42
Consensus pattern (130 bp):
TAATTGGTTTGTATGGTTTTTTCCTGGCCAACCCCTTTTTGACTTAGGTTTTGCCTTGGTCACCA
AAGTTGGTTCGTATGGTTTCATCTCGCCCAACCCTTTTCAAATCAGGTTTCACCTTAGTCACCTT
Found at i:12208 original size:66 final size:67
Alignment explanation
Indices: 11983--12444 Score: 297
Period size: 65 Copynumber: 7.1 Consensus size: 67
11973 AGCTAACTCT
* * ** * * * ** **
11983 TTTTTGACTT-AGGCTTTACCCTGGTCACCCATAATTAGTTCGTATGGTTTTTTCCCGGCCAA-C
1 TTTTTGACTTCAGGTTTTACCTTGGTCACCTTTAGTTGGTTTGTATGGTTTCATCTTGGCCAACC
12046 CC
66 CC
* * * *
12048 TTTATCGACTT-AGGTTTTGCCTTGGTCACC-TTAGTTGGTTCGTATGGTTTCATCTCGGCCAAC
1 TTT-TTGACTTCAGGTTTTACCTTGGTCACCTTTAGTTGGTTTGTATGGTTTCATCTTGGCCAAC
*
12111 CCA
65 CCC
** * * * ** *
12114 TTTTCAAATT-AGGTTTCA-CTGTAGTCACCTTTAGTTGGTTTGTATGGTTTTGTTTTGGCCAAC
1 TTTTTGACTTCAGGTTTTACCT-TGGTCACCTTTAGTTGGTTTGTATGGTTTCATCTTGGCCAAC
12177 CCC
65 CCC
* ** * *
12180 TTTTTGACTTCA-GTTTTACCTTGATCACC-AAAGTTGGTTCGTATGGTTTCATCTTGCCCAA-C
1 TTTTTGACTTCAGGTTTTACCTTGGTCACCTTTAGTTGGTTTGTATGGTTTCATCTTGGCCAACC
12242 CC
66 CC
* * * * * *
12244 TTTTTGAC-TCAGGTTTCACCTTGGTCACTTTTAATTGGTTTGTAGGGTTTCATCCTAGCCAACC
1 TTTTTGACTTCAGGTTTTACCTTGGTCACCTTTAGTTGGTTTGTATGGTTTCATCTTGGCCAACC
12308 CC
66 CC
* * ** * * ** * *
12310 TTTTTAACTT-AGGTTTTGCCTTGGTCACCCCTAATTAGTTCATATGGTTTCTTCCTGGCCAA-C
1 TTTTTGACTTCAGGTTTTACCTTGGTCACCTTTAGTTGGTTTGTATGGTTTCATCTTGGCCAACC
*
12373 TC
66 CC
* ** ** * ** *
12375 TTTTCTAAC-TCAGG-TTCGCCTTGGTCACCTTTAGTTGGTGCGTATAGTTTTGTCTTGGCTAA-
1 TTTT-TGACTTCAGGTTTTACCTTGGTCACCTTTAGTTGGTTTGTATGGTTTCATCTTGGCCAAC
12437 CCC
65 CCC
12440 TTTTT
1 TTTTT
12445 AAACAGAAGT
Statistics
Matches: 313, Mismatches: 72, Indels: 25
0.76 0.18 0.06
Matches are distributed among these distances:
63 3 0.01
64 28 0.09
65 145 0.46
66 133 0.42
67 4 0.01
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (67 bp):
TTTTTGACTTCAGGTTTTACCTTGGTCACCTTTAGTTGGTTTGTATGGTTTCATCTTGGCCAACC
CC
Found at i:13291 original size:32 final size:30
Alignment explanation
Indices: 13249--13309 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 30
13239 ATTTTTAATA
*
13249 TACGGGATTTTTTTAAATCTATAAAATTTTTT
1 TACGGGATTTTTCTAAAT-T-TAAAATTTTTT
* *
13281 TACGTGATTTTTCTAAGTTTAAAATTTTT
1 TACGGGATTTTTCTAAATTTAAAATTTTT
13310 AAAATTTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 10 0.38
31 1 0.04
32 15 0.58
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.54
Consensus pattern (30 bp):
TACGGGATTTTTCTAAATTTAAAATTTTTT
Found at i:15374 original size:44 final size:45
Alignment explanation
Indices: 15311--15400 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 45
15301 TAGTTTCATC
* *
15311 ATTTTAGACTGTTCGCAAGTCTTTTAG-GTTACTAAAATACTTTT
1 ATTTTAGACTGTTCGCAAGTCCTTTAGAGTTACTAAAACACTTTT
** * *
15355 ATTTTAGACTGTTTTCAAGTCCTTTAGAGTTAGTAAGACACTTTT
1 ATTTTAGACTGTTCGCAAGTCCTTTAGAGTTACTAAAACACTTTT
15400 A
1 A
15401 AGTTAAAGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 24 0.62
45 15 0.38
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.44
Consensus pattern (45 bp):
ATTTTAGACTGTTCGCAAGTCCTTTAGAGTTACTAAAACACTTTT
Found at i:17460 original size:32 final size:30
Alignment explanation
Indices: 17422--17480 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
17412 TTTAGGAAAA
* *
17422 AAATAATAAATATATTCTTTTATATTTACATC
1 AAATAATAAA-ACATTCTTTGAT-TTTACATC
17454 AAATAATAAAACATTCTTTGATTTTAC
1 AAATAATAAAACATTCTTTGATTTTAC
17481 GAATCCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 10 0.40
32 10 0.40
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (30 bp):
AAATAATAAAACATTCTTTGATTTTACATC
Found at i:17775 original size:3 final size:3
Alignment explanation
Indices: 17767--17828 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
17757 CCAAAGTAAT
17767 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
17815 TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TT
17829 GTTTTGCAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18282 original size:34 final size:35
Alignment explanation
Indices: 18244--18310 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
18234 CCTTACAACA
* *
18244 CTATCTTTT-CGAAGACTAAGATAGAACCTCTTTC
1 CTATCTTTTACGAAGACTAAAATAGAAACTCTTTC
*
18278 CTATCTTTTACGAAGGCTAAAATAGAAACTCTT
1 CTATCTTTTACGAAGACTAAAATAGAAACTCTT
18311 AATCACTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (35 bp):
CTATCTTTTACGAAGACTAAAATAGAAACTCTTTC
Found at i:18765 original size:20 final size:20
Alignment explanation
Indices: 18740--18777 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
18730 GTTGAGCTCA
18740 ATGTATCGATACAATGCACT
1 ATGTATCGATACAATGCACT
18760 ATGTATCGATACAATGCA
1 ATGTATCGATACAATGCA
18778 TTTGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACAATGCACT
Found at i:18776 original size:63 final size:63
Alignment explanation
Indices: 18677--18837 Score: 243
Period size: 63 Copynumber: 2.6 Consensus size: 63
18667 ACATGTTCTT
*
18677 ATGTATCGATACAATTCA-TAATGTATCGATACAATGCATTTGAAATTATAGCCGTTGAGCTCA
1 ATGTATCGATACAATTCACT-ATGTATCGATACAATGCATTTGAAATTATAACCGTTGAGCTCA
* **
18740 ATGTATCGATACAATGCACTATGTATCGATACAATGCATTTGAAATTATAACCGTTTTGCTCA
1 ATGTATCGATACAATTCACTATGTATCGATACAATGCATTTGAAATTATAACCGTTGAGCTCA
* * *
18803 ATGTATCGATATAATTTACCATGTATCGATACAAT
1 ATGTATCGATACAATTCACTATGTATCGATACAAT
18838 TTAATTATGA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
63 88 0.99
64 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (63 bp):
ATGTATCGATACAATTCACTATGTATCGATACAATGCATTTGAAATTATAACCGTTGAGCTCA
Found at i:18828 original size:20 final size:20
Alignment explanation
Indices: 18803--18840 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18793 GTTTTGCTCA
*
18803 ATGTATCGATATAATTTACC
1 ATGTATCGATACAATTTACC
18823 ATGTATCGATACAATTTA
1 ATGTATCGATACAATTTA
18841 ATTATGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATTTACC
Found at i:18921 original size:19 final size:20
Alignment explanation
Indices: 18897--18946 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
18887 ACATTTTATG
18897 ATGTATCGATACAAAG-AAC
1 ATGTATCGATACAAAGCAAC
* **
18916 ATGTATCGATACTAAGCAGT
1 ATGTATCGATACAAAGCAAC
18936 ATGTATCGATA
1 ATGTATCGATA
18947 AATCTGGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACAAAGCAAC
Found at i:19670 original size:80 final size:80
Alignment explanation
Indices: 19537--19696 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
19527 TTGTTCTAAT
*
19537 TTTCCCTTTAAAAACAATCTCCCCCTAATTGTTTTCAATTTAATACTAATTTTATGAAAATAATC
1 TTTCCCTTTAAAAACAATCTCCCCCTAATTGTTTTCAATTTAATACCAATTTTATGAAAATAATC
*
19602 TCCGCCTTAATAAAA
66 TCCCCCTTAATAAAA
*
19617 TTTCCCTTTAAAAACAATTTCCCCCTAATTGTTTTCAATTTAATACCAATTTTATGAAAATAATC
1 TTTCCCTTTAAAAACAATCTCCCCCTAATTGTTTTCAATTTAATACCAATTTTATGAAAATAATC
19682 TCCCCCTTAATAAAA
66 TCCCCCTTAATAAAA
19697 GTTTTTACCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (80 bp):
TTTCCCTTTAAAAACAATCTCCCCCTAATTGTTTTCAATTTAATACCAATTTTATGAAAATAATC
TCCCCCTTAATAAAA
Found at i:27686 original size:63 final size:63
Alignment explanation
Indices: 27587--27747 Score: 252
Period size: 63 Copynumber: 2.6 Consensus size: 63
27577 ACATGTTCTT
27587 ATGTATCGATACAATTCA-TAATGTATCGATACAATGCATTTGAAATTATAACCGTTGAGCTCA
1 ATGTATCGATACAATTCACT-ATGTATCGATACAATGCATTTGAAATTATAACCGTTGAGCTCA
** *
27650 ATGTATCGATACAATTCACTATGTATCGATACAATGCATTTGAAATTATAGTCGTTGGGCTCA
1 ATGTATCGATACAATTCACTATGTATCGATACAATGCATTTGAAATTATAACCGTTGAGCTCA
* * *
27713 ATGTATCGATATAATTTACCATGTATCGATACAAT
1 ATGTATCGATACAATTCACTATGTATCGATACAAT
27748 TTAATTATGA
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
63 90 0.99
64 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (63 bp):
ATGTATCGATACAATTCACTATGTATCGATACAATGCATTTGAAATTATAACCGTTGAGCTCA
Found at i:27738 original size:20 final size:20
Alignment explanation
Indices: 27713--27750 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27703 GTTGGGCTCA
*
27713 ATGTATCGATATAATTTACC
1 ATGTATCGATACAATTTACC
27733 ATGTATCGATACAATTTA
1 ATGTATCGATACAATTTA
27751 ATTATGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATTTACC
Found at i:27865 original size:33 final size:32
Alignment explanation
Indices: 27807--27871 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
27797 ACATTTTATG
*
27807 ATGTATCGATACAAAGAACATGTATCGATACA
1 ATGTATCGATACAAACAACATGTATCGATACA
* *
27839 ATGTGTCGATACTAAACAATATGTATCGATACA
1 ATGTATCGATAC-AAACAACATGTATCGATACA
27872 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAACAACATGTATCGATACA
Found at i:32854 original size:79 final size:80
Alignment explanation
Indices: 32760--32920 Score: 297
Period size: 79 Copynumber: 2.0 Consensus size: 80
32750 TATATGAGTG
*
32760 AAGTTTATATTATTATTATTACATTTATTAGTTTGCTGATTTTATTATTCAAATTTGTTGTGA-T
1 AAGTTTATATTATTATTATTACATTTACTAGTTTGCTGATTTTATTATTCAAATTTGTTGTGATT
32824 GATTTTAACAAATAA
66 GATTTTAACAAATAA
*
32839 AAGTTTATATTATTATTATTACATTTACTAGTTTGGTGATTTTATTATTCAAATTTGTTGTGATT
1 AAGTTTATATTATTATTATTACATTTACTAGTTTGCTGATTTTATTATTCAAATTTGTTGTGATT
32904 GATTTTAACAAATAA
66 GATTTTAACAAATAA
32919 AA
1 AA
32921 CACTAACTAT
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 61 0.77
80 18 0.23
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.51
Consensus pattern (80 bp):
AAGTTTATATTATTATTATTACATTTACTAGTTTGCTGATTTTATTATTCAAATTTGTTGTGATT
GATTTTAACAAATAA
Found at i:32950 original size:79 final size:79
Alignment explanation
Indices: 32784--32952 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
32774 ATTATTACAT
*** *
32784 TTATTAGTTTGCTGATTTTATTATTCAAATTTGTTGTGATGATTTTAACAAATAAAAGTTTATAT
1 TTATTAGTTTGCTGATTTTATTATTCAAATTTGTTGTGATGATTTTAACAAATAAAACACTATAC
** * *
32849 TATTATTATTACAT
66 TATTAAAATGACAA
* *
32863 TTACTAGTTTGGTGATTTTATTATTCAAATTTGTTGTGATTGATTTTAACAAATAAAACACTA-A
1 TTATTAGTTTGCTGATTTTATTATTCAAATTTGTTGTGA-TGATTTTAACAAATAAAACACTATA
32927 CTA-TAAAATGACTAA
65 CTATTAAAATGAC-AA
*
32942 TTGTTAGTTTG
1 TTATTAGTTTG
32953 TCAGAGTAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 6 0.08
79 50 0.66
80 20 0.26
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.48
Consensus pattern (79 bp):
TTATTAGTTTGCTGATTTTATTATTCAAATTTGTTGTGATGATTTTAACAAATAAAACACTATAC
TATTAAAATGACAA
Found at i:36670 original size:13 final size:13
Alignment explanation
Indices: 36652--36676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36642 CAATTCTTCA
36652 TGTATCGATACAG
1 TGTATCGATACAG
36665 TGTATCGATACA
1 TGTATCGATACA
36677 TTTCACTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:38005 original size:29 final size:29
Alignment explanation
Indices: 37971--38028 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
37961 AAAAACTAGT
37971 ACTTTGGCAAAACAATAACCGATGACTTA
1 ACTTTGGCAAAACAATAACCGATGACTTA
*
38000 ACTTTGGCAAAACAATAACTGATGACTTA
1 ACTTTGGCAAAACAATAACCGATGACTTA
38029 CTCTTTTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (29 bp):
ACTTTGGCAAAACAATAACCGATGACTTA
Found at i:42508 original size:15 final size:16
Alignment explanation
Indices: 42481--42511 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
42471 GTAATAGTTT
42481 AATTATGTTCTATAAA
1 AATTATGTTCTATAAA
42497 AATTAT-TTCTATAAA
1 AATTATGTTCTATAAA
42512 TTATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTATGTTCTATAAA
Found at i:42594 original size:14 final size:14
Alignment explanation
Indices: 42573--42613 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
42563 TTATATATTT
*
42573 TAAA-TAATATAAA
1 TAAATTAATAAAAA
42586 TAAATTAATAAAAA
1 TAAATTAATAAAAA
*
42600 TAAATCAATAAAAA
1 TAAATTAATAAAAA
42614 ATTATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAATTAATAAAAA
Found at i:50260 original size:19 final size:19
Alignment explanation
Indices: 50236--50276 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
50226 TTTCAATGCG
50236 TAAATACTATATAACTATA
1 TAAATACTATATAACTATA
50255 TAAATACTATATAACTATA
1 TAAATACTATATAACTATA
50274 TAA
1 TAA
50277 CGGTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATACTATATAACTATA
Found at i:55238 original size:20 final size:20
Alignment explanation
Indices: 55213--55250 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
55203 CAATGAGAAA
*
55213 ATGTATCGATATAATTTCTT
1 ATGTATCGATACAATTTCTT
55233 ATGTATCGATACAATTTC
1 ATGTATCGATACAATTTC
55251 CTTCCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACAATTTCTT
Found at i:65929 original size:22 final size:21
Alignment explanation
Indices: 65904--65957 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
65894 TTATTTAAAA
65904 TAATATTTAAAAATTACTATTT
1 TAATATTTAAAAATTA-TATTT
*
65926 TAATATTTATAAATTTATATTT
1 TAATATTTA-AAAATTATATTT
65948 TAA-A-TTAAAA
1 TAATATTTAAAA
65958 TTAAATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 17 0.57
23 6 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATATTTAAAAATTATATTT
Found at i:67451 original size:23 final size:23
Alignment explanation
Indices: 67402--67451 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
67392 CACTAAATTT
* *
67402 TTAAATAATAATAATTAATTAAT
1 TTAAATAAAAATAATTAATTAAA
*
67425 TTAAATAAAAATATTTTAA-TAAA
1 TTAAATAAAAATA-ATTAATTAAA
67448 TTAA
1 TTAA
67452 TTTTAAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTAAATAAAAATAATTAATTAAA
Found at i:68489 original size:22 final size:24
Alignment explanation
Indices: 68449--68494 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
68439 AGAGATACTG
68449 TTTTGATTTTTTAAAAAAT-TTAA
1 TTTTGATTTTTTAAAAAATATTAA
68472 TTTT-ATTTTATT-AAAAATATTAA
1 TTTTGATTTT-TTAAAAAATATTAA
68495 AGAAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTGATTTTTTAAAAAATATTAA
Found at i:71207 original size:11 final size:11
Alignment explanation
Indices: 71183--71215 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
71173 TTTGCTTCTT
71183 AAATTTTATAAA
1 AAATTTT-TAAA
71195 AAATTTTT-AA
1 AAATTTTTAAA
71205 AAATTTTTAAA
1 AAATTTTTAAA
71216 GATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 3 0.15
12 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AAATTTTTAAA
Found at i:71323 original size:21 final size:19
Alignment explanation
Indices: 71290--71335 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
71280 TTAAAAACAA
71290 TTTTT-TTTAAGATATATATT
1 TTTTTATTTAAGAT-TA-ATT
*
71310 TTTTTATTTGAGATTAATT
1 TTTTTATTTAAGATTAATT
71329 TTTTTAT
1 TTTTTAT
71336 GATATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 7 0.29
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTTATTTAAGATTAATT
Found at i:71728 original size:2 final size:2
Alignment explanation
Indices: 71721--71746 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
71711 TTTGAAAATT
71721 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
71747 GAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:79270 original size:19 final size:19
Alignment explanation
Indices: 79246--79308 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
79236 TAGCCAAACT
79246 TGTATCGATACAGCAAGTA
1 TGTATCGATACAGCAAGTA
79265 TGTATCGAT--A-C-A--A
1 TGTATCGATACAGCAAGTA
79278 TGTATCGATACAGCAAGTA
1 TGTATCGATACAGCAAGTA
79297 TGTATCGATACA
1 TGTATCGATACA
79309 TTAGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 2 0.05
17 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (19 bp):
TGTATCGATACAGCAAGTA
Found at i:79282 original size:13 final size:13
Alignment explanation
Indices: 79264--79289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79254 TACAGCAAGT
79264 ATGTATCGATACA
1 ATGTATCGATACA
79277 ATGTATCGATACA
1 ATGTATCGATACA
79290 GCAAGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:79287 original size:32 final size:32
Alignment explanation
Indices: 79246--79308 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
79236 TAGCCAAACT
79246 TGTATCGATACAGCAAGTATGTATCGATACAA
1 TGTATCGATACAGCAAGTATGTATCGATACAA
79278 TGTATCGATACAGCAAGTATGTATCGATACA
1 TGTATCGATACAGCAAGTATGTATCGATACA
79309 TTAGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (32 bp):
TGTATCGATACAGCAAGTATGTATCGATACAA
Found at i:83371 original size:15 final size:15
Alignment explanation
Indices: 83351--83381 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
83341 TAAAAATGTC
*
83351 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
83366 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
83381 C
1 C
83382 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:85478 original size:13 final size:13
Alignment explanation
Indices: 85460--85485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85450 ACATTTTTCT
85460 TTGTATCGATACA
1 TTGTATCGATACA
85473 TTGTATCGATACA
1 TTGTATCGATACA
85486 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:88059 original size:13 final size:13
Alignment explanation
Indices: 88041--88066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88031 TACAGCAAGT
88041 ATGTATCGATACA
1 ATGTATCGATACA
88054 ATGTATCGATACA
1 ATGTATCGATACA
88067 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:90913 original size:20 final size:21
Alignment explanation
Indices: 90888--90936 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
90878 GAAAAAATTA
90888 TATCGATACATAAATGG-A-TG
1 TATCGATACAT-AATGGTATTG
*
90908 TATCGATACATGATGGTATTG
1 TATCGATACATAATGGTATTG
90929 TATCGATA
1 TATCGATA
90937 TATTTTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 12 0.46
21 10 0.38
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (21 bp):
TATCGATACATAATGGTATTG
Found at i:96580 original size:18 final size:18
Alignment explanation
Indices: 96538--96580 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
96528 TTTCGATTGC
96538 TTTCTTTTTTTTCTGCTG
1 TTTCTTTTTTTTCTGCTG
* *
96556 TTGCTTTTTTCTTCTTCT-
1 TTTCTTTTTT-TTCTGCTG
96574 TTTCTTT
1 TTTCTTT
96581 GCTGTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.00, C:0.19, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTCTTTTTTTTCTGCTG
Found at i:96744 original size:25 final size:27
Alignment explanation
Indices: 96702--96752 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
96692 TTTCATGAAT
*
96702 TTTTGTCATTTGTTGCAGCTT-AATTGC
1 TTTTGTCATTTGTAGCAG-TTGAATTGC
96729 TTTT-TCA-TTGTAGCAGTTGAATTG
1 TTTTGTCATTTGTAGCAGTTGAATTG
96753 TTTCTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.09
25 13 0.59
26 3 0.14
27 4 0.18
ACGTcount: A:0.18, C:0.12, G:0.20, T:0.51
Consensus pattern (27 bp):
TTTTGTCATTTGTAGCAGTTGAATTGC
Found at i:97259 original size:13 final size:13
Alignment explanation
Indices: 97223--97265 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
97213 TTTTAATTTG
97223 ATTTTTTAT-TAT
1 ATTTTTTATATAT
* * *
97235 ATTATATGTATAT
1 ATTTTTTATATAT
97248 ATTTTTTATATAT
1 ATTTTTTATATAT
97261 ATTTT
1 ATTTT
97266 ATTTAATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 6 0.25
13 18 0.75
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
ATTTTTTATATAT
Found at i:97278 original size:11 final size:12
Alignment explanation
Indices: 97231--97295 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 12
97221 TGATTTTTTA
97231 TTATATTA-TAT
1 TTATATTATTAT
* *
97242 GTATA-TATTTT
1 TTATATTATTAT
97253 TTATATATATTTTAT
1 TTATAT-TA--TTAT
97268 TTA-ATTATTA-
1 TTATATTATTAT
97278 TTATATTATTAT
1 TTATATTATTAT
97290 TT-TATT
1 TTATATT
97296 TTTTTACTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
10 5 0.12
11 24 0.56
12 2 0.05
13 4 0.09
14 2 0.05
15 6 0.14
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:97294 original size:19 final size:19
Alignment explanation
Indices: 97234--97295 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 19
97224 TTTTTTATTA
97234 TATTATATGTATATATTTT-T
1 TATTATAT-TAT-TATTTTAT
97254 TATATATATT-TTATTTAATTAT
1 TAT-TATATTATTA-TT--TTAT
97276 TATTATATTATTATTTTAT
1 TATTATATTATTATTTTAT
97295 T
1 T
97296 TTTTTACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
18 2 0.06
19 8 0.22
20 4 0.11
21 15 0.42
22 7 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTATATTATTATTTTAT
Found at i:98315 original size:42 final size:42
Alignment explanation
Indices: 97876--98316 Score: 363
Period size: 42 Copynumber: 10.5 Consensus size: 42
97866 AAAGGAAAAA
* * * *
97876 AAGTCTCTAGGGTCAAAGCCAACAGGCAAACTAAGGGTAAAG
1 AAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
* * * * * *
97918 AAGCCT-TCAGGGTCAAAGTCGATAGGCAGACTAAAGGTAAAG
1 AAGTCTCT-AGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
* * * *
97960 AAGTCTAC-AAGGTCAAAGCCGATAGGTC-GACTAAAGGTTAGG
1 AAGTCT-CTAGGGTCAAAGCCAACAGG-CAGACTAAAGGTCAGG
* * * **
98002 AAGTCTCCAGGTTCAAAGCCGACAGGCAGACT-AAGGTCAAA
1 AAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
*** * *
98043 AAGTCTCTAGGGTCAAAGTTGACAAGCAGGCTAAAGGTCAGG
1 AAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
* * ** *
98085 AAGTCTCTAGGGTCAAAGCCGACAGGTAGACTAAAAATCAAG
1 AAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
* * * * * *
98127 AAGTCTCTAAGGTCAAAGTCAACAAGTAGAATAAAAGTCAGG
1 AAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
* * * * * *
98169 AAGTCTCTTA-GGTCAAAGCCGACAAGCAGACCAAAAGTAAGA
1 AAGTCTC-TAGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
*
98211 AAGTCTCCTA-GGTCAAAGCCAACAGGTAGACTAAAGGTCAGG
1 AAGTCT-CTAGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
* * * * * *
98253 AAGTCTCCAAGGTCAAAGCCAATAGACAAACTGAAGGTCAGG
1 AAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
98295 AAGTCTCTAGGGTCAAAGCCAA
1 AAGTCTCTAGGGTCAAAGCCAA
98317 GGTCAGGAAG
Statistics
Matches: 327, Mismatches: 62, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
41 37 0.11
42 286 0.87
43 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (42 bp):
AAGTCTCTAGGGTCAAAGCCAACAGGCAGACTAAAGGTCAGG
Found at i:98321 original size:29 final size:29
Alignment explanation
Indices: 98286--98341 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
98276 AGACAAACTG
*
98286 AAGGTCAGGAAGTCTCTAGGGTCAAAGCC
1 AAGGTCAGGAAGTCTCTAGGGTAAAAGCC
98315 AAGGTCAGGAAGTCTCTAGGGTAAAAG
1 AAGGTCAGGAAGTCTCTAGGGTAAAAG
98342 TCGACAGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (29 bp):
AAGGTCAGGAAGTCTCTAGGGTAAAAGCC
Found at i:98397 original size:42 final size:42
Alignment explanation
Indices: 98351--98960 Score: 299
Period size: 42 Copynumber: 14.5 Consensus size: 42
98341 GTCGACAGGC
** *
98351 AGACTAAAAGTTGGGAAGTCTTCAAGGTCAAAGCCGAAT-GGT
1 AGACTAAAAGTTAAGAAGTCTCCAAGGTCAAAG-CGAATAGGT
* *
98393 AGACTAAAGGTTAAGAAGTCTCCAAGGTCAAAGCTAATAGGT
1 AGACTAAAAGTTAAGAAGTCTCCAAGGTCAAAGCGAATAGGT
* * * *
98435 AGACTAAAGGTCAAAAAGTCTCCAAGGTCAAAGTCG-ATAGGC
1 AGACTAAAAGTTAAGAAGTCTCCAAGGTCAAAG-CGAATAGGT
* * * * * *
98477 AGACTAAAGGTCACGAAGTCTCTC-GGGTCAAAGTCG-ACAGAT
1 AGACTAAAAGTTAAGAAGTCTC-CAAGGTCAAAG-CGAATAGGT
* * * * *
98519 AGACCAAAAG-TAAGAAAGTCTCTAGGGTCATAGCTGACA-A-GC
1 AGACTAAAAGTTAAG-AAGTCTCCAAGGTCAAAGC-GA-ATAGGT
* * * *
98561 AGACTGAAAG-TAAGGAAGCCTCC-AGAATCAAAGCCG-ACAGGT
1 AGACTAAAAGTTAA-GAAGTCTCCAAG-GTCAAAG-CGAATAGGT
* * * * *
98603 AGATTGAAGGTTAGGAAGTCTCCAAGGTCAAAGTCG-ATAGGC
1 AGACTAAAAGTTAAGAAGTCTCCAAGGTCAAAG-CGAATAGGT
* * * * * * * *
98645 AGATTGAAGGTCAGGAAGTCTCTAAGGTCAAAGCTAATAGGC
1 AGACTAAAAGTTAAGAAGTCTCCAAGGTCAAAGCGAATAGGT
* * * * *
98687 AGACAAAAAGTCAAAAAGTCTCCAAGGTCAAAGCCGACT-GGC
1 AGACTAAAAGTTAAGAAGTCTCCAAGGTCAAAG-CGAATAGGT
* * *
98729 AGACTAAAGGTCAAGAAGTCTCCAAAGTCAAAGCCGACA-A-GT
1 AGACTAAAAGTTAAGAAGTCTCCAAGGTCAAAG-CGA-ATAGGT
* *
98771 AGACT-AAAGGTAAGGAAGTCTCTAAGGTCAAAGTCG-ATAGGT
1 AGACTAAAAGTTAA-GAAGTCTCCAAGGTCAAAG-CGAATAGGT
* ** *
98813 AAACTGTAAG-TAAGAAAGTCTCCAAGGTCAAAGCTGACA-A-GC
1 AGACTAAAAGTTAAG-AAGTCTCCAAGGTCAAAGC-GA-ATAGGT
** * * * * * * * *
98855 AGACTGCAAGTCAAAAAGTGTCGAGGGTCAAAGCTAACAGGC
1 AGACTAAAAGTTAAGAAGTCTCCAAGGTCAAAGCGAATAGGT
* * *
98897 AGACTAAAAGATAAGAAGTCTCC-AGTGTCAAAGCTG-ACAGGC
1 AGACTAAAAGTTAAGAAGTCTCCAAG-GTCAAAGC-GAATAGGT
*
98939 AGACTAAAAGTAAAGAAGTCTC
1 AGACTAAAAGTTAAGAAGTCTC
98961 TAGGGTTTGA
Statistics
Matches: 450, Mismatches: 86, Indels: 64
0.75 0.14 0.11
Matches are distributed among these distances:
40 3 0.01
41 21 0.05
42 406 0.90
43 18 0.04
44 2 0.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (42 bp):
AGACTAAAAGTTAAGAAGTCTCCAAGGTCAAAGCGAATAGGT
Found at i:98445 original size:155 final size:155
Alignment explanation
Indices: 98163--98467 Score: 389
Period size: 155 Copynumber: 2.0 Consensus size: 155
98153 TAGAATAAAA
* *
98163 GTCAGGAAGTCTCTTAGGTCAAAGCCGACAAGCAGACCAAAAGTAAGAAAGTCTCCTAGGTCAAA
1 GTCAGGAAGTCTCTTAGGTAAAAGCCGACAAGCAGACCAAAAGTAAGAAAGTCTCCAAGGTCAAA
* *
98228 GCCAACAGGTAGACTAAAGGTCAGGAAGTCTCCAAGGTCAAAGCCAATAGACAAACTGAAGGTCA
66 GCCAACAGGTAGACTAAAGGTCAAGAAGTCTCCAAGGTCAAAGCCAATAGACAAACTAAAGGTCA
** * *
98293 GGAAGTCTCTAGGGTCAAAGCCAAG
131 AAAAGTCTCCAAGGTCAAAGCCAAG
* * * ** * *
98318 GTCAGGAAGTCTC-TAGGGTAAAAGTCGACAGGCAGACTAAAAGTTGGGAAGTCTTCAAGGTCAA
1 GTCAGGAAGTCTCTTA-GGTAAAAGCCGACAAGCAGACCAAAAGTAAGAAAGTCTCCAAGGTCAA
* * * ** *
98382 AGCCGAA-TGGTAGACTAAAGGTTAAGAAGTCTCCAAGGTCAAAGCTAATAGGTAGACTAAAGGT
65 AGCC-AACAGGTAGACTAAAGGTCAAGAAGTCTCCAAGGTCAAAGCCAATAGACAAACTAAAGGT
98446 CAAAAAGTCTCCAAGGTCAAAG
129 CAAAAAGTCTCCAAGGTCAAAG
98468 TCGATAGGCA
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
154 2 0.02
155 123 0.97
156 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (155 bp):
GTCAGGAAGTCTCTTAGGTAAAAGCCGACAAGCAGACCAAAAGTAAGAAAGTCTCCAAGGTCAAA
GCCAACAGGTAGACTAAAGGTCAAGAAGTCTCCAAGGTCAAAGCCAATAGACAAACTAAAGGTCA
AAAAGTCTCCAAGGTCAAAGCCAAG
Found at i:98461 original size:197 final size:197
Alignment explanation
Indices: 98126--98509 Score: 495
Period size: 197 Copynumber: 1.9 Consensus size: 197
98116 TAAAAATCAA
* * *
98126 GAAGTCTCTAAGGTCAAAGTCAACAAGTAGAATAAAAGTCAGGAAGTCTCTTAGGTCAAAGCCGA
1 GAAGTCTCTAAGGTAAAAGTCAACAAGCAGAATAAAAGTCAGGAAGTCTCTAAGGTCAAAGCCGA
* **
98191 CAAGCAGACCAAAAGTAAGAAAGTCTCCTAGGTCAAAGCCAACAGGTAGACTAAAGGTCAGGAAG
66 CAAGCAGACCAAAAGTAAGAAAGTCTCCAAGGTCAAAGCCAACAGGTAGACTAAAGGTCAAAAAG
* *
98256 TCTCCAAGGTCAAAGCCAATAGACAAACTGAAGGTCAGGAAGTCTCTAGGGTCAAAGCCAAGGTC
131 TCTCCAAGGTCAAAGCCAATAGACAAACTAAAGGTCACGAAGTCTCTAGGGTCAAAGCCAAGGTC
98321 AG
196 AG
* * * * **
98323 GAAGTCTCTAGGGTAAAAGTCGACAGGCAGACTAAAAGTTGGGAAGTCT-TCAAGGTCAAAGCCG
1 GAAGTCTCTAAGGTAAAAGTCAACAAGCAGAATAAAAGTCAGGAAGTCTCT-AAGGTCAAAGCCG
* * * * * *
98387 A-ATGGTAGACTAAAGGTTAAG-AAGTCTCCAAGGTCAAAGCTAATAGGTAGACTAAAGGTCAAA
65 ACA-AGCAGACCAAAAG-TAAGAAAGTCTCCAAGGTCAAAGCCAACAGGTAGACTAAAGGTCAAA
* * * * *
98450 AAGTCTCCAAGGTCAAAGTCGATAGGCAGACTAAAGGTCACGAAGTCTCTCGGGTCAAAG
128 AAGTCTCCAAGGTCAAAGCCAATAGACAAACTAAAGGTCACGAAGTCTCTAGGGTCAAAG
98510 TCGACAGATA
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
196 2 0.01
197 153 0.96
198 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (197 bp):
GAAGTCTCTAAGGTAAAAGTCAACAAGCAGAATAAAAGTCAGGAAGTCTCTAAGGTCAAAGCCGA
CAAGCAGACCAAAAGTAAGAAAGTCTCCAAGGTCAAAGCCAACAGGTAGACTAAAGGTCAAAAAG
TCTCCAAGGTCAAAGCCAATAGACAAACTAAAGGTCACGAAGTCTCTAGGGTCAAAGCCAAGGTC
AG
Found at i:98495 original size:126 final size:125
Alignment explanation
Indices: 98324--98960 Score: 511
Period size: 126 Copynumber: 5.1 Consensus size: 125
98314 CAAGGTCAGG
* * * * * ** *
98324 AAGTCTCTAGGGTAAAAGTCGACAGGCAGACTAAAAGTTGGGAAGTCTTCAAGGTCAAAGCCGA-
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTCAGGAAGTCTCCAAGGTCAAAGCCGAC
* *
98388 ATGGTAGACTAAAGGTTAAGAAGTCTCCAAGGTCAAAGCTAATAGGTAGACT-AAAGGTCAAA
66 A-GGTAGACTAAAGG-TAAGAAGTCTCTAAGGTCAAAGCTAATAGGCAGACTGAAA-GTCAAA
* * * * *
98450 AAGTCTCCAAGGTCAAAGTCGATAGGCAGACTAAAGGTCACGAAGTCTCTC-GGGTCAAAGTCGA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTCAGGAAGTCTC-CAAGGTCAAAGCCGA
* * * * * * * * *
98514 CAGATAGACCAAAAGTAAGAAAGTCTCTAGGGTCATAGCTGACAAGCAGACTGAAAGT-AAGG
65 CAGGTAGACTAAAGGTAAG-AAGTCTCTAAGGTCAAAGCTAATAGGCAGACTGAAAGTCAA-A
* * * * * * *
98576 AAGCCTCC-AGAATCAAAGCCGACAGGTAGATTGAAGGTTAGGAAGTCTCCAAGGTCAAAGTCGA
1 AAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTAAAGGTCAGGAAGTCTCCAAGGTCAAAGCCGA
* * * * * **
98640 TAGGCAGATTGAAGGTCAGGAAGTCTCTAAGGTCAAAGCTAATAGGCAGACAAAAAGTCAAA
65 CAGGTAGACTAAAGGT-AAGAAGTCTCTAAGGTCAAAGCTAATAGGCAGACTGAAAGTCAAA
* * *
98702 AAGTCTCCAAGGTCAAAGCCGACTGGCAGACTAAAGGTCAAGAAGTCTCCAAAGTCAAAGCCGAC
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTCAGGAAGTCTCCAAGGTCAAAGCCGAC
* * * * *
98767 AAGTAGACTAAAGGTAAGGAAGTCTCTAAGGTCAAAG-TCGATAGGTAAACTGTAAGT-AAGA
66 AGGTAGACTAAAGGTAA-GAAGTCTCTAAGGTCAAAGCT-AATAGGCAGACTGAAAGTCAA-A
* * * ** * * * **
98828 AAGTCTCCAAGGTCAAAGCTGACAAGCAGACTGCAA-GTCAAAAAGTGTCGAGGGTCAAAGCTAA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAAGGTCAGGAAGTCTCCAAGGTCAAAGCCGA
* * * * * *
98892 CAGGCAGACTAAAAGATAAGAAGTCTC-CAGTGTCAAAGCTGACAGGCAGACTAAAAGT-AAA
65 CAGGTAGACT-AAAGGTAAGAAGTCTCTAAG-GTCAAAGCTAATAGGCAGACTGAAAGTCAAA
98953 GAAGTCTC
1 -AAGTCTC
98961 TAGGGTTTGA
Statistics
Matches: 403, Mismatches: 90, Indels: 36
0.76 0.17 0.07
Matches are distributed among these distances:
125 16 0.04
126 366 0.91
127 21 0.05
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (125 bp):
AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTCAGGAAGTCTCCAAGGTCAAAGCCGAC
AGGTAGACTAAAGGTAAGAAGTCTCTAAGGTCAAAGCTAATAGGCAGACTGAAAGTCAAA
Found at i:98962 original size:168 final size:166
Alignment explanation
Indices: 98366--98960 Score: 558
Period size: 168 Copynumber: 3.5 Consensus size: 166
98356 AAAAGTTGGG
* * * * * **
98366 AAGTCTTCAAGGTCAAAGCCGA-ATGGTAGACTAAAGGTTAAGAAGTCTCCA-AGGTCAAAGCTA
1 AAGTCTCCAGGGTCAAAGCTGACA-GGCAGACTAAAAG-TAAGAAGTCTCCAGA-GTCAAAGCCG
* * *
98429 ATAGGTAGACTAAAGGTCAAA-AAGTCTCCAAGGTCAAAGTCGATAGGCAGACTAAAGGTCACGA
63 ACAGGTAGACTAAAGGT-AAAGAAGTCTCCAAGGTCAAAGTCGATAGGCAGACTGAAGGT-AAGA
* * *
98493 AGTCTCTC-GGGTCAAAG-TCGAC-AGATAGACCAAAAGT-AAGA
126 AGTCTC-CAAGGTCAAAGCT-GACAAG-CAGACAAAAAGTCAA-A
* * * * * *
98534 AAGTCTCTAGGGTCATAGCTGACAAGCAGACTGAAAGTAAGGAAGCCTCCAGAATCAAAGCCGAC
1 AAGTCTCCAGGGTCAAAGCTGACAGGCAGACTAAAAGTAA-GAAGTCTCCAGAGTCAAAGCCGAC
* * * * * *
98599 AGGTAGATTGAAGGTTAGGAAGTCTCCAAGGTCAAAGTCGATAGGCAGATTGAAGGTCAGGAAGT
65 AGGTAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAAGTCGATAGGCAGACTGAAGGT-AAGAAGT
* * * *
98664 CTCTAAGGTCAAAGCTAATAGGCAGACAAAAAGTCAAA
129 CTCCAAGGTCAAAGCTGACAAGCAGACAAAAAGTCAAA
* * * * *
98702 AAGTCTCCAAGGTCAAAGCCGACTGGCAGACTAAAGGTCAAGAAGTCTCCAAAGTCAAAGCCGAC
1 AAGTCTCCAGGGTCAAAGCTGACAGGCAGACTAAAAGT-AAGAAGTCTCCAGAGTCAAAGCCGAC
* * * * *
98767 AAGTAGACTAAAGGTAAGGAAGTCTCTAAGGTCAAAGTCGATAGGTAAACTGTAA-GTAAGAAAG
65 AGGTAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAAGTCGATAGGCAGACTG-AAGGTAAG-AAG
***
98831 TCTCCAAGGTCAAAGCTGACAAGCAGACTGCAAGTCAAA
128 TCTCCAAGGTCAAAGCTGACAAGCAGACAAAAAGTCAAA
* * * * *
98870 AAGTGTCGAGGGTCAAAGCTAACAGGCAGACTAAAAGATAAGAAGTCTCCAGTGTCAAAGCTGAC
1 AAGTCTCCAGGGTCAAAGCTGACAGGCAGACTAAAAG-TAAGAAGTCTCCAGAGTCAAAGCCGAC
* *
98935 AGGCAGACTAAAAGTAAAGAAGTCTC
65 AGGTAGACTAAAGGTAAAGAAGTCTC
98961 TAGGGTTTGA
Statistics
Matches: 346, Mismatches: 69, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
167 6 0.02
168 329 0.95
169 11 0.03
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (166 bp):
AAGTCTCCAGGGTCAAAGCTGACAGGCAGACTAAAAGTAAGAAGTCTCCAGAGTCAAAGCCGACA
GGTAGACTAAAGGTAAAGAAGTCTCCAAGGTCAAAGTCGATAGGCAGACTGAAGGTAAGAAGTCT
CCAAGGTCAAAGCTGACAAGCAGACAAAAAGTCAAA
Found at i:98966 original size:84 final size:82
Alignment explanation
Indices: 98344--98962 Score: 398
Period size: 84 Copynumber: 7.4 Consensus size: 82
98334 GGTAAAAGTC
*** * *
98344 GACAGGCAGACTAAAAGTTGGGAAGTCT-TCAAGGTCAAAGCCGA-ATGGTAGACTAAAGGTTAA
1 GACAGGCAGACTAAAAGTAAAGAAGTCTCT-AAGGTCAAAGCTGACA-GGCAGACTAAAGG-TAA
98407 GAAGTCTCCAAGGTCAAAGCT
63 GAAGTCTCC-AGGTCAAAGCT
* * * * * * *
98428 AATAGGTAGACTAAAGGTCAAA-AAGTCTCCAAGGTCAAAG-TCGATAGGCAGACTAAAGGTCAC
1 GACAGGCAGACTAAAAGT-AAAGAAGTCTCTAAGGTCAAAGCT-GACAGGCAGACTAAAGGT-AA
*
98491 GAAGTCTCTCGGGTCAAAG-T
63 GAAGTCTC-CAGGTCAAAGCT
** * * * *
98511 CGACAGATAGACCAAAAGT-AAGAAAGTCTCTAGGGTCATAGCTGACAAGCAGACTGAAA-GTAA
1 -GACAGGCAGACTAAAAGTAAAG-AAGTCTCTAAGGTCAAAGCTGACAGGCAGACT-AAAGGTAA
* * *
98574 GGAAGCCTCCAGAATCAAAGCC
63 -GAAGTCTCCAG-GTCAAAGCT
* * * * * * * * * * *
98596 GACAGGTAGATTGAAGGTTAGGAAGTCTCCAAGGTCAAAG-TCGATAGGCAGATTGAAGGTCAGG
1 GACAGGCAGACTAAAAGTAAAGAAGTCTCTAAGGTCAAAGCT-GACAGGCAGACTAAAGGT-AAG
*
98660 AAGTCTCTAAGGTCAAAGCT
64 AAGTCTC-CAGGTCAAAGCT
* * * * * *
98680 AATAGGCAGACAAAAAGTCAAA-AAGTCTCCAAGGTCAAAGCCGACTGGCAGACTAAAGGTCAAG
1 GACAGGCAGACTAAAAGT-AAAGAAGTCTCTAAGGTCAAAGCTGACAGGCAGACTAAAGGT-AAG
* *
98744 AAGTCTCCAAAGTCAAAGCC
64 AAGTCTCC-AGGTCAAAGCT
* * * * * * * *
98764 GACAAGTAGACTAAAGGTAAGGAAGTCTCTAAGGTCAAAG-TCGATAGGTAAACTGTAA-GTAAG
1 GACAGGCAGACTAAAAGTAAAGAAGTCTCTAAGGTCAAAGCT-GACAGGCAGACT-AAAGGTAAG
98827 AAAGTCTCCAAGGTCAAAGCT
64 -AAGTCTCC-AGGTCAAAGCT
* ** * * * * *
98848 GACAAGCAGACTGCAAGTCAAA-AAGTGTCGAGGGTCAAAGCTAACAGGCAGACTAAAAGATAAG
1 GACAGGCAGACTAAAAGT-AAAGAAGTCTCTAAGGTCAAAGCTGACAGGCAGACT-AAAGGTAAG
98912 AAGTCTCCAGTGTCAAAGCT
64 AAGTCTCCAG-GTCAAAGCT
98932 GACAGGCAGACTAAAAGTAAAGAAGTCTCTA
1 GACAGGCAGACTAAAAGTAAAGAAGTCTCTA
98963 GGGTTTGACT
Statistics
Matches: 405, Mismatches: 99, Indels: 62
0.72 0.17 0.11
Matches are distributed among these distances:
82 2 0.00
83 18 0.04
84 364 0.90
85 21 0.05
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (82 bp):
GACAGGCAGACTAAAAGTAAAGAAGTCTCTAAGGTCAAAGCTGACAGGCAGACTAAAGGTAAGAA
GTCTCCAGGTCAAAGCT
Found at i:102338 original size:16 final size:17
Alignment explanation
Indices: 102317--102348 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
102307 AGGGGATTAT
102317 ATCGAAAT-AATGAAAA
1 ATCGAAATGAATGAAAA
102333 ATCGAAATGAATGAAA
1 ATCGAAATGAATGAAA
102349 CTAATGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (17 bp):
ATCGAAATGAATGAAAA
Found at i:103201 original size:25 final size:26
Alignment explanation
Indices: 103156--103208 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
103146 ATGCATTTTT
* *
103156 TTCATTTGTTGCAGCTTAATTGCTTC
1 TTCATTTGTAGCAGCTAAATTGCTTC
*
103182 TTCATTT-TAGCAGCTAAATTGTTTC
1 TTCATTTGTAGCAGCTAAATTGCTTC
103207 TT
1 TT
103209 TCTTTTTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (26 bp):
TTCATTTGTAGCAGCTAAATTGCTTC
Found at i:107638 original size:20 final size:20
Alignment explanation
Indices: 107554--107638 Score: 61
Period size: 20 Copynumber: 4.3 Consensus size: 20
107544 AAAAACCCAG
* *
107554 TGTATCGATACA-ATAAGAAA
1 TGTATCGATACATTTAA-TAA
* **
107574 TGTATCGATAAAATTGTAAGCA
1 TGTATCGAT-ACATT-TAATAA
*
107596 TGTATTGATACATTTAAT-A
1 TGTATCGATACATTTAATAA
107615 --TATCGATACATTTAATAA
1 TGTATCGATACATTTAATAA
107633 TGTATC
1 TGTATC
107639 AATGCATTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
17 15 0.29
18 1 0.02
19 1 0.02
20 16 0.31
21 6 0.12
22 9 0.18
23 3 0.06
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAATAA
Found at i:110647 original size:20 final size:21
Alignment explanation
Indices: 110618--110666 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
110608 ACAAGGTCCA
*
110618 GTATCGATACATTCA-CTTA-T
1 GTATCAATACATT-ATCTTATT
110638 GTATCAATACATTATCTTATT
1 GTATCAATACATTATCTTATT
110659 GTATCAAT
1 GTATCAAT
110667 GGAAAATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 16 0.62
21 9 0.35
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (21 bp):
GTATCAATACATTATCTTATT
Found at i:117067 original size:52 final size:52
Alignment explanation
Indices: 116924--117052 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
116914 CGAAATATGA
116924 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
116976 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGGTACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
117028 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
117053 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:117079 original size:13 final size:13
Alignment explanation
Indices: 117061--117085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117051 CAAAGATCAG
117061 TGTATCGATACAA
1 TGTATCGATACAA
117074 TGTATCGATACA
1 TGTATCGATACA
117086 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:117148 original size:13 final size:13
Alignment explanation
Indices: 117130--117181 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
117120 AGCTTCGTAG
117130 CGATACATTGTAT
1 CGATACATTGTAT
117143 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
117162 CGATACATTGTAT
1 CGATACATTGTAT
117175 CGATACA
1 CGATACA
117182 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:117162 original size:19 final size:19
Alignment explanation
Indices: 117138--117202 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
117128 AGCGATACAT
117138 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
117157 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
117170 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
117189 TGTATCGATACAAA
1 TGTATCGATACAAA
117203 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:117171 original size:32 final size:32
Alignment explanation
Indices: 117130--117200 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
117120 AGCTTCGTAG
117130 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
117162 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
117194 CGATACA
1 CGATACA
117201 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:118695 original size:49 final size:48
Alignment explanation
Indices: 118625--118904 Score: 320
Period size: 49 Copynumber: 5.8 Consensus size: 48
118615 CGAAGAATGA
* * *
118625 CAATGTGCTGATTTATGGCCAGCGACATTGATCTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGA-CTTAAAGATGACGGTGC
* * ** * *
118674 CAATATGCTGATTCAAAGCCAGCGATACCAGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACA-TTGACTTAAAGATGACGGTGC
* *
118723 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGACGGTGC
* *
118772 CAATATGCTGATTCAAGGCCAACGATATTGGACTT--A-A--A-GGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGACGGTGC
*
118815 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GACTTAAAGATGACGGTGC
*
118864 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 CAATATGCTGATTCAAGGCCAGCGACATT-GACTTA-AAGA
118905 AGATGCCACC
Statistics
Matches: 198, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
43 38 0.19
44 1 0.01
45 1 0.01
46 2 0.01
47 1 0.01
48 1 0.01
49 148 0.75
50 6 0.03
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGACTTAAAGATGACGGTGC
Found at i:118832 original size:21 final size:21
Alignment explanation
Indices: 118767--118832 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
118757 TAAAGATGAC
118767 GGTGCCAATATGCTGATTCAA
1 GGTGCCAATATGCTGATTCAA
* ** *
118788 -G-GCCAACGATATTGGACTTAAA
1 GGTGCCAA-TATGCT-GA-TTCAA
118810 GGTGCCAATATGCTGATTCAA
1 GGTGCCAATATGCTGATTCAA
118831 GG
1 GG
118833 CCAGCGACAT
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
19 5 0.16
20 4 0.12
21 8 0.25
22 6 0.19
23 4 0.12
24 5 0.16
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (21 bp):
GGTGCCAATATGCTGATTCAA
Found at i:118862 original size:92 final size:96
Alignment explanation
Indices: 118625--118912 Score: 399
Period size: 92 Copynumber: 3.0 Consensus size: 96
118615 CGAAGAATGA
* *
118625 CAATGTGCTGATTTATGGCCAGCGACATT-GATCTTAAAGATGACGGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGACGGTGCCAATATGCTGATTCA
* ***
118689 AAGCCAGCGATACCAGACTTAAAGATGAAGATGC
65 AGGCCAGCGATATTGGACTT-AAGATG-AGATGC
*
118723 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGATTCAA
*
118788 GGCCAACGATATTGGACTTAA-A-G-G-TGC
66 GGCCAGCGATATTGGACTTAAGATGAGATGC
* *
118815 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAACGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGATTCAA
*
118880 GGCCAGCGATATTGGACTT-AGAAGAAGATGC
66 GGCCAGCGATATTGGACTTAAGATG-AGATGC
118911 CA
1 CA
118913 CCAACTTGTG
Statistics
Matches: 172, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
91 1 0.01
92 84 0.49
93 2 0.01
95 2 0.01
96 6 0.03
97 2 0.01
98 74 0.43
99 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (96 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAGATGAGATGC
Found at i:118986 original size:28 final size:28
Alignment explanation
Indices: 118921--119073 Score: 166
Period size: 29 Copynumber: 5.4 Consensus size: 28
118911 CACCAACTTG
**
118921 TGTGGGCTTTTGATAGGGTTG-CACCAACT
1 TGTGGGCTTTTGA-A-GGTTGCCACTGACT
*
118950 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * * *
118978 TGTGGGCTTTTGAAAAGATACCACTAACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
119007 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
119035 TGTGGGC-TTTGAAAAGGATGCCACGGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
119064 TGTGGGCTTT
1 TGTGGGCTTT
119074 GGAAAAGGTG
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 9 0.09
28 37 0.35
29 57 0.54
30 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:119007 original size:57 final size:57
Alignment explanation
Indices: 118946--119073 Score: 204
Period size: 57 Copynumber: 2.2 Consensus size: 57
118936 GGGTTGCACC
* *
118946 AACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAA-GATACCACT
1 AACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGC-TTTGAAAAGGATACCACG
*
119003 AACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACG
1 AACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGATACCACG
*
119060 GACTTGTGGGCTTT
1 AACTTGTGGGCTTT
119074 GGAAAAGGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
56 8 0.12
57 58 0.88
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (57 bp):
AACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGATACCACG
Found at i:120534 original size:1 final size:1
Alignment explanation
Indices: 120530--120618 Score: 61
Period size: 1 Copynumber: 89.0 Consensus size: 1
120520 GTTGTTGTTG
* * * * * * * * **
120530 TTTTTGTTTTTTGTTTTTTGTTTTTTTTTGTTTTTTTTCTTCTTTTTTTTTGTTTATTTGGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
120595 TTTTTTGTTTTGTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTT
120619 AGAGGACGCC
Statistics
Matches: 64, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.01, C:0.02, G:0.11, T:0.85
Consensus pattern (1 bp):
T
Found at i:120536 original size:9 final size:8
Alignment explanation
Indices: 120524--120618 Score: 74
Period size: 8 Copynumber: 11.9 Consensus size: 8
120514 CTTTTTGTTG
120524 TTGTTGTTT
1 TTGTT-TTT
120533 TTG-TTTT
1 TTGTTTTT
120540 TTGTTTTT
1 TTGTTTTT
*
120548 TGTTTTTTT
1 T-TGTTTTT
120557 TTGTTTTT
1 TTGTTTTT
* *
120565 TT-TCTTC
1 TTGTTTTT
120572 TT-TTTTT
1 TTGTTTTT
120579 TTGTTTATT
1 TTGTTT-TT
*
120588 TGGTTTTT
1 TTGTTTTT
120596 TT-TTTGTT
1 TTGTTT-TT
120604 TTGTTTGTT
1 TTGTTT-TT
120613 TT-TTTT
1 TTGTTTT
120619 AGAGGACGCC
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
7 20 0.28
8 27 0.38
9 25 0.35
ACGTcount: A:0.01, C:0.02, G:0.13, T:0.84
Consensus pattern (8 bp):
TTGTTTTT
Found at i:120550 original size:20 final size:19
Alignment explanation
Indices: 120515--120618 Score: 111
Period size: 20 Copynumber: 5.1 Consensus size: 19
120505 ATCCGGACCC
120515 TTTTTGTTGTTGTTGTTTTTGT
1 TTTTTGTT-TT-TTGTTTTT-T
120537 TTTTTGTTTTTTGTTTTTT
1 TTTTTGTTTTTTGTTTTTT
*
120556 TTTGTT-TTTTTTCTTCTTTT
1 TTT-TTGTTTTTTGTT-TTTT
*
120576 TTTTTGTTTATTTGGTTTTT
1 TTTTTGTTT-TTTGTTTTTT
120596 TTTTTGTTTTGTTTGTTTTTT
1 TTTTTG-TTT-TTTGTTTTTT
120617 TT
1 TT
120619 AGAGGACGCC
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
19 14 0.19
20 30 0.42
21 20 0.28
22 8 0.11
ACGTcount: A:0.01, C:0.02, G:0.13, T:0.84
Consensus pattern (19 bp):
TTTTTGTTTTTTGTTTTTT
Found at i:120579 original size:39 final size:41
Alignment explanation
Indices: 120515--120618 Score: 126
Period size: 39 Copynumber: 2.6 Consensus size: 41
120505 ATCCGGACCC
*
120515 TTTTTGTTGTTGTTGT-TTTTGTTTTTTGTTT-TTT-G-TTTT
1 TTTTTGTT-TTGTT-TCTTTTTTTTTTTGTTTATTTGGTTTTT
*
120554 TTTTTGTTTTTTTTCTTCTTTTTTTTTGTTTATTTGGTTTTT
1 TTTTTGTTTTGTTTCTT-TTTTTTTTTGTTTATTTGGTTTTT
*
120596 TTTTTGTTTTGTTTGTTTTTTTT
1 TTTTTGTTTTGTTTCTTTTTTTT
120619 AGAGGACGCC
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
37 1 0.02
38 6 0.11
39 20 0.36
40 3 0.05
41 7 0.12
42 19 0.34
ACGTcount: A:0.01, C:0.02, G:0.13, T:0.84
Consensus pattern (41 bp):
TTTTTGTTTTGTTTCTTTTTTTTTTTGTTTATTTGGTTTTT
Found at i:134264 original size:52 final size:52
Alignment explanation
Indices: 134121--134249 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
134111 CGAAATATGA
* *
134121 AAATTTGCCTGCATGTATCGCTACATTTCATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
134173 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGGTACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
134225 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
134250 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:134276 original size:13 final size:13
Alignment explanation
Indices: 134258--134282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134248 CAAAGATCAG
134258 TGTATCGATACAA
1 TGTATCGATACAA
134271 TGTATCGATACA
1 TGTATCGATACA
134283 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:134345 original size:13 final size:13
Alignment explanation
Indices: 134327--134410 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
134317 AGCTTCGTAG
134327 CGATACATTGTAT
1 CGATACATTGTAT
134340 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
134359 CGATACATTGTAT
1 CGATACATTGTAT
134372 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
134391 CGATACATTGTAT
1 CGATACATTGTAT
134404 CGATACA
1 CGATACA
134411 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:134359 original size:19 final size:18
Alignment explanation
Indices: 134335--134431 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
134325 AGCGATACAT
134335 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
134354 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
134367 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
134386 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
134399 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
134418 TGTATCGATACAAA
1 TGTATCGATACAAA
134432 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 3 0.05
19 35 0.53
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:134368 original size:32 final size:32
Alignment explanation
Indices: 134327--134429 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
134317 AGCTTCGTAG
*
134327 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
134359 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
134391 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
134423 CGATACA
1 CGATACA
134430 AATCGTTGAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:140911 original size:20 final size:21
Alignment explanation
Indices: 140871--140921 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
140861 TTCTACAATT
* *
140871 TGTATCGATACAATTAGTGAA
1 TGTATTGATACAATAAGTGAA
140892 TGTATTGATAC-ATAAGTGAA
1 TGTATTGATACAATAAGTGAA
140912 TGTATTGATA
1 TGTATTGATA
140922 AATGCCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (21 bp):
TGTATTGATACAATAAGTGAA
Found at i:141039 original size:22 final size:20
Alignment explanation
Indices: 140969--141045 Score: 102
Period size: 20 Copynumber: 3.8 Consensus size: 20
140959 ACTGCCAAGG
**
140969 AAATGTATCGATACATTAGT
1 AAATGTATCGATACATGCGT
140989 AAATGTAT-GATACATGCGT
1 AAATGTATCGATACATGCGT
*
141008 AAATGTATCGATACATGCTT
1 AAATGTATCGATACATGCGT
141028 ACAATTGTATCGATACAT
1 A-AA-TGTATCGATACAT
141046 TTCTTATTGT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 17 0.33
20 19 0.37
21 2 0.04
22 13 0.25
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATGCGT
Found at i:142047 original size:19 final size:21
Alignment explanation
Indices: 142008--142047 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
141998 TAGCCCTTGA
142008 TCATGCATTTTATGCCATGTC
1 TCATGCATTTTATGCCATGTC
142029 TCATGCATTTTA-G-CATGTC
1 TCATGCATTTTATGCCATGTC
142048 CAACATCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (21 bp):
TCATGCATTTTATGCCATGTC
Found at i:143327 original size:27 final size:27
Alignment explanation
Indices: 143297--143364 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
143287 TTTATTCATC
*
143297 GGGATGCTCCAACCCCATCATTCCGAG
1 GGGATACTCCAACCCCATCATTCCGAG
143324 GGGATACTCCAACCCCATCATTCCGAG
1 GGGATACTCCAACCCCATCATTCCGAG
143351 GGGATACTCCAACC
1 GGGATACTCCAACC
143365 TCGCTTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.25, C:0.37, G:0.21, T:0.18
Consensus pattern (27 bp):
GGGATACTCCAACCCCATCATTCCGAG
Found at i:145681 original size:28 final size:28
Alignment explanation
Indices: 145614--145736 Score: 156
Period size: 28 Copynumber: 4.4 Consensus size: 28
145604 GAGGAGTAAC
* ** *
145614 TTTTCAAAGCTCACAAGTCAGTGGCACT
1 TTTTCAAAGCCCATGAGTTAGTGGCACT
*
145642 CCTTTCAAAGCCCATGAGTTAGTGGCACT
1 -TTTTCAAAGCCCATGAGTTAGTGGCACT
* *
145671 TTTTCAAAGCCCATGGGTTAATGGCACT
1 TTTTCAAAGCCCATGAGTTAGTGGCACT
*
145699 TTTTCAAAGCCCATGAGTTAGTGGCACG
1 TTTTCAAAGCCCATGAGTTAGTGGCACT
*
145727 CTTTCAAAGC
1 TTTTCAAAGC
145737 TGACAAGTCA
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 59 0.72
29 23 0.28
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (28 bp):
TTTTCAAAGCCCATGAGTTAGTGGCACT
Found at i:145964 original size:79 final size:78
Alignment explanation
Indices: 145813--146013 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 78
145803 AAGCTAGTGG
*
145813 AATC-TCTTTCTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTACCTTAGTCAT
1 AATCTTCTTTCTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTACCCTAGTCAT
* *
145877 GTGGCATTTGTCA
66 GCGACATTTGTCA
* * * * * *
145890 AAGTCTTCCTTT-TAAGTCCAATGTCACTGGCCTTGAATTAGCATATTGGCATTTTGCCCTAGTT
1 AA-TCTT-CTTTCTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTACCCTAGTC
*
145954 ATGCGACATTTGTTA
64 ATGCGACATTTGTCA
* ** * *
145969 AATCTTCTTTCTAAATCCAATGTCGTTGGCCTTAAATCAATACAT
1 AATCTTCTTTCTAAGTCCAATGTCACTGGCCTTGAATCAACACAT
146014 CAGCACTTTT
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
77 6 0.06
78 32 0.31
79 60 0.59
80 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (78 bp):
AATCTTCTTTCTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCATTCTACCCTAGTCAT
GCGACATTTGTCA
Found at i:146108 original size:53 final size:53
Alignment explanation
Indices: 146049--146173 Score: 178
Period size: 53 Copynumber: 2.4 Consensus size: 53
146039 GATATCATTG
* * * *
146049 GCCTTGAATTAGCACATCGACACCTTTATCATCTTTAAAGTTCAATGTCGCTA
1 GCCTTGAATTAGCACATCGACACCATTATCATCTTCAAAGTCCAATGTCACTA
* * *
146102 GCCTTGAATTAGTACATTGGCACCATTATCATCTTCAAAGTCCAATGTCACTA
1 GCCTTGAATTAGCACATCGACACCATTATCATCTTCAAAGTCCAATGTCACTA
*
146155 GCCTTGAATCAGCACATCG
1 GCCTTGAATTAGCACATCG
146174 TTACCTTTTC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (53 bp):
GCCTTGAATTAGCACATCGACACCATTATCATCTTCAAAGTCCAATGTCACTA
Found at i:146188 original size:53 final size:52
Alignment explanation
Indices: 146049--146188 Score: 163
Period size: 53 Copynumber: 2.6 Consensus size: 52
146039 GATATCATTG
* * *
146049 GCCTTGAATTAGCACATCGACACCTTTATCATCTTTAAAGTTCAATGTCGCTA
1 GCCTTGAATTAGCACATCGACACCTTT-TCATCTTCAAAGTCCAATGTCACTA
* * * *
146102 GCCTTGAATTAGTACATTGGCACCATTATCATCTTCAAAGTCCAATGTCACTA
1 GCCTTGAATTAGCACATCGACACC-TTTTCATCTTCAAAGTCCAATGTCACTA
* **
146155 GCCTTGAATCAGCACATCGTTACCTTTTCCATCT
1 GCCTTGAATTAGCACATCGACACCTTTT-CATCT
146189 CTAAAACCAG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
52 3 0.04
53 67 0.93
54 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (52 bp):
GCCTTGAATTAGCACATCGACACCTTTTCATCTTCAAAGTCCAATGTCACTA
Found at i:147951 original size:13 final size:13
Alignment explanation
Indices: 147933--147957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
147923 ATTTTGCTTA
147933 GTATCGATACATT
1 GTATCGATACATT
147946 GTATCGATACAT
1 GTATCGATACAT
147958 AAAACTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:149799 original size:20 final size:20
Alignment explanation
Indices: 149774--149816 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
149764 GAAATGTTGA
149774 AAGTCATATGCTATCAATGC
1 AAGTCATATGCTATCAATGC
*
149794 AAGTCATATGCTATTAATGC
1 AAGTCATATGCTATCAATGC
149814 AAG
1 AAG
149817 AAACCCGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
AAGTCATATGCTATCAATGC
Found at i:150132 original size:21 final size:21
Alignment explanation
Indices: 150108--150166 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
150098 TAATATTCTT
* *
150108 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
150129 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
150150 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
150167 GTTGCAAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:158823 original size:33 final size:33
Alignment explanation
Indices: 158786--158852 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
158776 TTCAACGATT
158786 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
158819 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
158852 T
1 T
158853 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:158824 original size:13 final size:13
Alignment explanation
Indices: 158806--158830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
158796 CATAAAATGT
158806 TGTATCGATACAA
1 TGTATCGATACAA
158819 TGTATCGATACA
1 TGTATCGATACA
158831 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:158911 original size:13 final size:13
Alignment explanation
Indices: 158893--158917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
158883 ATTACTCAAA
158893 TGTATCGATACAT
1 TGTATCGATACAT
158906 TGTATCGATACA
1 TGTATCGATACA
158918 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:166188 original size:16 final size:16
Alignment explanation
Indices: 166167--166212 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
166157 TCTTCTTTTC
166167 CAAAAAAGAAACAAAA
1 CAAAAAAGAAACAAAA
** *
166183 CAAAAAAGATGCAGAA
1 CAAAAAAGAAACAAAA
166199 -AAAAAAGAAA-AAAA
1 CAAAAAAGAAACAAAA
166213 AGAACAACCC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 13 0.54
ACGTcount: A:0.78, C:0.09, G:0.11, T:0.02
Consensus pattern (16 bp):
CAAAAAAGAAACAAAA
Found at i:167217 original size:31 final size:31
Alignment explanation
Indices: 167179--167323 Score: 199
Period size: 31 Copynumber: 4.7 Consensus size: 31
167169 AATAAAAAAA
167179 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
167210 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
167241 AAAGTCCACGACGCAGTGGC-ATC-CTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
167270 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 ---AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
167303 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
167324 TTTTTTCTTT
Statistics
Matches: 103, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
29 5 0.05
30 23 0.22
31 49 0.48
32 22 0.21
33 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:167324 original size:62 final size:63
Alignment explanation
Indices: 167179--167347 Score: 215
Period size: 62 Copynumber: 2.7 Consensus size: 63
167169 AATAAAAAAA
167179 AAAGTCCACGACTCAGTGGCAATCTCTTCTC---AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATC-CTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTGCTC
* *
167241 AAAGTCCACGACGCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTG-CTC
* * * *
167303 AAAGTCCACGACTCAGTGGCAT-TTTTTCTTTAAAGCCCACAACTC
1 AAAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTC
167348 CATGGCACCT
Statistics
Matches: 96, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
60 6 0.06
61 25 0.26
62 45 0.47
63 20 0.21
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (63 bp):
AAAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTGCTC
Found at i:167354 original size:93 final size:93
Alignment explanation
Indices: 167179--167358 Score: 224
Period size: 93 Copynumber: 1.9 Consensus size: 93
167169 AATAAAAAAA
167179 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
* * *
167244 GTCCACGACGCAGTGGCATCCTTCTCTTT
66 GCCCACAACCCAGTGGCA-CCTTCTCTTT
* * * * *
167273 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGC-ATTTTTTCTTTA
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCAATCTCTGC-TCA
167335 AAGCCCACAACTCCA-TGGCACCTT
64 AAGCCCACAAC-CCAGTGGCACCTT
167359 GTTCCTTTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
92 11 0.15
93 42 0.56
94 22 0.29
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (93 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
GCCCACAACCCAGTGGCACCTTCTCTTT
Found at i:167369 original size:34 final size:33
Alignment explanation
Indices: 167331--167650 Score: 303
Period size: 34 Copynumber: 9.8 Consensus size: 33
167321 GCATTTTTTC
*
167331 TTTAAAGCCCACAACTCCATGGCACCTTGTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTCCT
* *
167365 TTT-AAGTCCACAACGCCGTGGCA-C----CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
* **
167392 TTTAAAGCCCACAATTCCGTGGCA-CTTTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
* * *
167424 ATCTTTAAGTCCACAACTCCGTGGCA-C----CCG
1 -T-TTAAAGCCCACAACTCCGTGGCACCTTTTCCT
167454 TTT-AAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTCCT
167486 TTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTT-TTCCT
167520 TTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTT-TTCCT
**
167554 TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C--TTTTCCT
*
167590 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTCCT
*
167624 TTTAAAGCCCACAACTCTGTGGCACCT
1 TTTAAAGCCCACAACTCCGTGGCACCT
167651 ACAACTTTGT
Statistics
Matches: 244, Mismatches: 22, Indels: 41
0.79 0.07 0.13
Matches are distributed among these distances:
27 25 0.10
28 21 0.09
29 1 0.00
32 6 0.02
33 61 0.25
34 100 0.41
35 2 0.01
36 8 0.03
37 20 0.08
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (33 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
Found at i:167396 original size:61 final size:61
Alignment explanation
Indices: 167331--167840 Score: 350
Period size: 70 Copynumber: 7.9 Consensus size: 61
167321 GCATTTTTTC
* * * *
167331 TTTAAAGCCCACAACTCCATGGCACCTTGTTCCTTTT-AAGTCCACAACGCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTT-CTTTTAAAGCCCACAACTCCGTGGCACCCT
* * * * * *
167392 TTTAAAGCCCACAATTCCGTGGCA-CTTTTTTTATCTTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT-T-TTAAAGCCCACAACTCCGTGGCACCCT
167454 TTT-AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT-AAAGCCCACAACTCCGTGGCA-C--C--
167518 CT
60 CT
**
167520 TTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCA--C----
167585 TTCCT
59 --CCT
* *
167590 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA-CC-
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCCT
**
167650 --T-------ACAACTTTGTGGCA-CTCTCATTCCCTTTTTAAAGCCCACAACTCCGTGGCACCT
1 TTTAAAGCCCACAACTCCGTGGCACCT-TC-TT--C-TTTTAAAGCCCACAACTCCGTGGCACC-
167705 TTTTCT
60 ----CT
*
167711 ATTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACTT
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT--C-TTTTAAAGCCCACAACTCCGTGGCAC--
*
167776 TTTTCT
59 ---CCT
* *
167782 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCA
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTTAAAGCCCACAACTCCGTGGCA
167841 TCTTTCTCCC
Statistics
Matches: 377, Mismatches: 26, Indels: 85
0.77 0.05 0.17
Matches are distributed among these distances:
49 2 0.01
50 13 0.03
51 2 0.01
53 1 0.00
54 24 0.06
55 1 0.00
58 1 0.00
59 1 0.00
60 9 0.02
61 65 0.17
62 32 0.08
64 2 0.01
66 4 0.01
67 19 0.05
68 52 0.14
69 4 0.01
70 93 0.25
71 46 0.12
72 4 0.01
73 2 0.01
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (61 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACCCT
Found at i:167624 original size:70 final size:70
Alignment explanation
Indices: 167457--167845 Score: 455
Period size: 70 Copynumber: 5.4 Consensus size: 70
167447 GCACCCGTTT
* *
167457 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTCTT-C
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTTCC
167519 TTTTCA
65 TTTTCA
* **
167525 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCT
167590 TTTCA
66 TTTCA
*
167595 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTTG
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA-CT----C--T-
*
167660 TGGCACTCTCATTCCCTTTTTA
58 T-----T-T--TT-CCTTTTCA
*
167682 AAGCCCACAACTCCGTGGCACCTTTTTCTATTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCC
*
167747 TTTTTA
65 TTTTCA
* *
167753 AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCT
167818 TTT--
66 TTTCA
* *
167821 AAGTCCACAACTCCGTGGCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
167846 CTCCCTTCTC
Statistics
Matches: 288, Mismatches: 12, Indels: 42
0.84 0.04 0.12
Matches are distributed among these distances:
67 20 0.07
68 55 0.19
69 4 0.01
70 97 0.34
71 38 0.13
72 1 0.00
74 1 0.00
75 2 0.01
77 1 0.00
78 1 0.00
80 1 0.00
81 1 0.00
83 2 0.01
84 1 0.00
86 2 0.01
87 38 0.13
88 23 0.08
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCT
TTTCA
Found at i:167710 original size:87 final size:88
Alignment explanation
Indices: 167564--167736 Score: 294
Period size: 87 Copynumber: 2.0 Consensus size: 88
167554 TTTAAAGCCC
** *
167564 ACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
1 ACAACTTTGTGGCACTCTCATTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTATTTA
*
167628 AAGCCCACAACTCTGTGGCACCT
66 AAGCCCACAACTCCGTGGCACCT
*
167651 ACAACTTTGTGGCACTCTCATTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTATTTA
1 ACAACTTTGTGGCACTCTCATTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTATTTA
167716 AAGCCCACAACTCCGTGGCAC
66 AAGCCCACAACTCCGTGGCAC
167737 TCTTTTTCCC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 56 0.70
88 24 0.30
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (88 bp):
ACAACTTTGTGGCACTCTCATTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTATTTA
AAGCCCACAACTCCGTGGCACCT
Found at i:167721 original size:34 final size:33
Alignment explanation
Indices: 167677--167845 Score: 232
Period size: 34 Copynumber: 4.9 Consensus size: 33
167667 CTCATTCCCT
167677 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
167710 TATTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
*
167747 TTTTTAAAGCCCACAACTCCGTGGCACTTTTTTC
1 -TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
167781 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
* *
167817 TTTT-AAGTCCACAACTCCGTGGCATCTTT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTT
167846 CTCCCTTCTC
Statistics
Matches: 124, Mismatches: 4, Indels: 15
0.87 0.03 0.10
Matches are distributed among these distances:
33 27 0.22
34 35 0.28
35 25 0.20
36 10 0.08
37 26 0.21
38 1 0.01
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.35
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
Found at i:167756 original size:158 final size:157
Alignment explanation
Indices: 167518--167806 Score: 497
Period size: 158 Copynumber: 1.8 Consensus size: 157
167508 GCACCTTCTT
**
167518 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
* *
167583 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
167648 CCTACAACTTTGTGGCACTCTCATTCC
131 CCTACAACTTTGTGGCACTCTCATTCC
* *
167675 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTATTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT-TTTAAAGCCCACAACTCCGTGGCACTCT
* *
167740 TTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
65 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGC
167805 AC
130 AC
167807 TCTTTTTCCC
Statistics
Matches: 123, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
157 34 0.28
158 89 0.72
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (157 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
CCTACAACTTTGTGGCACTCTCATTCC
Found at i:167767 original size:71 final size:70
Alignment explanation
Indices: 167659--167845 Score: 306
Period size: 71 Copynumber: 2.7 Consensus size: 70
167649 CTACAACTTT
**
167659 GTGGCACTCTCATTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTATTTAAAGCCCAC
1 GTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCAC
167724 AACTCC
65 AACTCC
*
167730 GTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
1 GTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACA
167795 ACTCC
66 ACTCC
* *
167800 GTGGCACTCTTTTTCCC-TTTT-AAGTCCACAACTCCGTGGCATCTTT
1 GTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
167846 CTCCCTTCTC
Statistics
Matches: 110, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
68 22 0.20
69 4 0.04
70 35 0.32
71 49 0.45
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (70 bp):
GTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACA
ACTCC
Found at i:167851 original size:34 final size:35
Alignment explanation
Indices: 167671--167866 Score: 258
Period size: 35 Copynumber: 5.5 Consensus size: 35
167661 GGCACTCTCA
*
167671 TTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
1 TTCCC-TTTTAAAGCCCACAACTCCGTGGCATCTTT
167707 TT--CTATTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTCCCT-TTTAAAGCCCACAACTCCGTGGCA-TCTTT
167742 TTCCCTTTTTAAAGCCCACAACTCCGTGGCA-CTTT
1 TTCCC-TTTTAAAGCCCACAACTCCGTGGCATCTTT
*
167777 TT-TCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTCCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTT
*
167812 TTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTT
1 TTCCCTTTTAAAGCCCACAACTCCGTGGCATCTTT
*
167846 CTCCCTTCTCTAAAGCCCACA
1 TTCCCTT-T-TAAAGCCCACA
167867 CAAGTCGGTG
Statistics
Matches: 143, Mismatches: 6, Indels: 21
0.84 0.04 0.12
Matches are distributed among these distances:
33 26 0.18
34 37 0.26
35 38 0.27
36 8 0.06
37 33 0.23
38 1 0.01
ACGTcount: A:0.20, C:0.35, G:0.11, T:0.34
Consensus pattern (35 bp):
TTCCCTTTTAAAGCCCACAACTCCGTGGCATCTTT
Found at i:167962 original size:33 final size:34
Alignment explanation
Indices: 167848--167988 Score: 241
Period size: 34 Copynumber: 4.2 Consensus size: 34
167838 GCATCTTTCT
167848 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
167882 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
167916 CCCTTCTCCAAAGCCCACACAAGTTGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
167949 CCATTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
167982 CCCTTCT
1 CCCTTCT
167989 AAGCCCAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
33 38 0.38
34 63 0.62
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (34 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:168046 original size:49 final size:49
Alignment explanation
Indices: 167988--168925 Score: 1274
Period size: 49 Copynumber: 19.7 Consensus size: 49
167978 GCAACCCTTC
* * * *
167988 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
168037 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
168086 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
168135 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
168184 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
168233 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
168276 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
168325 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
168368 TAACTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
168417 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
168460 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
168509 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
168552 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
168601 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
168650 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
168698 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
168747 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
168795 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
168838 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
168890 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
168926 ACATCCTTTT
Statistics
Matches: 787, Mismatches: 68, Indels: 65
0.86 0.07 0.07
Matches are distributed among these distances:
43 196 0.25
45 3 0.00
47 3 0.00
48 92 0.12
49 457 0.58
50 1 0.00
52 35 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:168297 original size:22 final size:22
Alignment explanation
Indices: 168230--168297 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
168220 GCACCTTTAT
168230 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
168252 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
168273 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
168295 CTT
1 CTT
168298 GACTCAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:168327 original size:92 final size:92
Alignment explanation
Indices: 168178--168934 Score: 1149
Period size: 92 Copynumber: 8.1 Consensus size: 92
168168 TTGGCACCTT
* *
168178 CACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
168243 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * * *
168270 CACCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
168335 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * *
168362 CACCTTTAACTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
168427 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
*
168454 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
168519 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * *
168546 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
*
168611 GTAGCTGGCCTTGACTCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* *
168638 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAG
1 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG
*
168702 TCCAATGTAGCTGGCCTTGACTCAGCACATTGG
60 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * *
168735 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAG
1 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG
168799 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
60 TCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* *
168832 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCC
*
168897 AATGTAGCTGGCCTTGAATCAGCACATTGA
63 AATGTAGCTGGCCTTGAATCAGCACATTGG
168927 CATCCTTT
1 CA-CCTTT
168935 TTCATCATCT
Statistics
Matches: 626, Mismatches: 28, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
91 41 0.07
92 354 0.57
93 1 0.00
94 1 0.00
95 42 0.07
96 6 0.01
97 141 0.23
98 40 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGG
Found at i:168353 original size:141 final size:141
Alignment explanation
Indices: 167983--168925 Score: 1282
Period size: 141 Copynumber: 6.6 Consensus size: 141
167973 CGGTGGCAAC
* * * *
167983 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
168048 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATC
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
*
168113 AGCATATTGGCA
130 AGCACATTGGCA
* * *
168125 CCTTTATTTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTC
1 CC------TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
* * *
168190 CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTT
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
168255 GAATCAGCACATTGGCA
125 GAATCAGCACATTGGCA
* *
168272 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
* * *
168337 AGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAACTCCAATATCGCTGGCCTTGAATCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
*
168396 GCATATTGGCA
131 GCACATTGGCA
168407 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTC
1 ----C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
* * *
168466 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
168531 GAATCAGCACATTGGCA
125 GAATCAGCACATTGGCA
* * * * *
168548 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
*
168613 AGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
168678 GCACATTGGCA
131 GCACATTGGCA
*
168689 CCTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 ---C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
168754 AATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTG
61 AATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
168818 AATCAGCACATTGGCA
126 AATCAGCACATTGGCA
* * * *
168834 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAA
168899 TGTAGCTGGCCTTGAATCAGCACATTG
63 TGTAGCTGGCCTTGAATCAGCACATTG
168926 ACATCCTTTT
Statistics
Matches: 715, Mismatches: 54, Indels: 63
0.86 0.06 0.08
Matches are distributed among these distances:
135 116 0.16
137 1 0.00
139 3 0.00
140 40 0.06
141 251 0.35
142 5 0.01
143 41 0.06
144 1 0.00
145 45 0.06
146 86 0.12
147 124 0.17
148 2 0.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (141 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
GCACATTGGCA
Found at i:168971 original size:56 final size:52
Alignment explanation
Indices: 168835--168973 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
168825 ACATTGGCAC
* *
168835 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
168887 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
168943 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
168974 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:169843 original size:20 final size:20
Alignment explanation
Indices: 169799--169856 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
169789 ATTTCAACGA
***
169799 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATATTTT
*
169819 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
169839 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
169857 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:169913 original size:13 final size:13
Alignment explanation
Indices: 169895--169919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
169885 ATTACTCAAA
169895 TGTATCGATACAT
1 TGTATCGATACAT
169908 TGTATCGATACA
1 TGTATCGATACA
169920 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:180240 original size:20 final size:21
Alignment explanation
Indices: 180217--180258 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
180207 GGTCCTTAAA
180217 ATGTT-AAAAATGCATAAAAC
1 ATGTTAAAAAATGCATAAAAC
*
180237 ATGTTAAAAAATGCATGAAAC
1 ATGTTAAAAAATGCATAAAAC
180258 A
1 A
180259 CTTTTCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24
Consensus pattern (21 bp):
ATGTTAAAAAATGCATAAAAC
Found at i:182661 original size:19 final size:18
Alignment explanation
Indices: 182616--182662 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
182606 TCATAATTCT
*
182616 TAGATAATTA-TATTTAA
1 TAGATAAATATTATTTAA
* *
182633 TAGATGAATATTATTTAT
1 TAGATAAATATTATTTAA
182651 TGAGATAAATAT
1 T-AGATAAATAT
182663 GAATTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (18 bp):
TAGATAAATATTATTTAA
Found at i:183507 original size:43 final size:43
Alignment explanation
Indices: 183442--183533 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
183432 GAAAGTCTAG
* *
183442 TTGTTTTTATGTTTACATCTTTCGCTACTATTTTTTCTTGATT
1 TTGTTTCTATGTTTACAACTTTCGCTACTATTTTTTCTTGATT
* * * *
183485 TTGTTTCTATGTTTACAACTTTCGTTGCTCTTTTTTCTTTATT
1 TTGTTTCTATGTTTACAACTTTCGCTACTATTTTTTCTTGATT
183528 TTGTTT
1 TTGTTT
183534 TCTTTTGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.12, C:0.14, G:0.10, T:0.64
Consensus pattern (43 bp):
TTGTTTCTATGTTTACAACTTTCGCTACTATTTTTTCTTGATT
Found at i:185425 original size:28 final size:28
Alignment explanation
Indices: 185378--185438 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
185368 CCTTCAAAGA
*
185378 AAGAAAATGCTCTGTATCAAAGACTTTG
1 AAGAAAATACTCTGTATCAAAGACTTTG
* *
185406 AAGAAAATACTGTGTGTCAAAGACTTTG
1 AAGAAAATACTCTGTATCAAAGACTTTG
185434 AAGAA
1 AAGAA
185439 TGTTCGGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (28 bp):
AAGAAAATACTCTGTATCAAAGACTTTG
Done.