Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01010362.1 Corchorus olitorius cultivar O-4 contig10394, whole genome shotgun sequence
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: 3059
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Found at i:303 original size:123 final size:123
Alignment explanation
Indices: 84--329 Score: 422
Period size: 123 Copynumber: 2.0 Consensus size: 123
74 TGCGGCCCAT
84 TAGTGACGTTTTGAATCCTCTTCGATTCGGCAAACCGCAATGCTTTTCTTTCCATTGTTTATGGC
1 TAGTGACGTTTTGAATCCTCTTCGATTCGGCAAACCGCAATGCTTTTCTTTCCATTGTTTATGGC
* *
149 GTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
66 CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
* * *
207 TAGTGACGTTTTGAATCGTCTTCGATAT-GGCAAACCTCAATGCTTTTCTTTCCATTGTTTATTG
1 TAGTGACGTTTTGAATCCTCTTCGAT-TCGGCAAACCGCAATGCTTTTCTTTCCATTGTTTATGG
*
271 CCTAACTATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAA
65 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
330 CACTTGTTAT
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
123 115 0.99
124 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (123 bp):
TAGTGACGTTTTGAATCCTCTTCGATTCGGCAAACCGCAATGCTTTTCTTTCCATTGTTTATGGC
CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
Found at i:489 original size:154 final size:154
Alignment explanation
Indices: 207--637 Score: 711
Period size: 154 Copynumber: 2.8 Consensus size: 154
197 TCATTTGGAA
* * *
207 TAGTGACGTTTTGAATCGTCTTCGATATGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATTGC
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCATTGTTTATGGC
* * * *
272 CTAACTATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
66 GTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAAACTTGT
* *
337 TATTTTGGGCCTAT-TGCGGCCCAT
131 TACTTTGGGCCTATCGGC-GCCCAT
* *
361 TAGTGACGTTTTGAATCCTCTTCGATTTGGCAAACCGCAATGCTTTTCTTTCCATTGTTTATGGC
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCATTGTTTATGGC
426 GTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAAACTTGT
66 GTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAAACTTGT
*
491 TACTTTGGGCCTATCGGCGCCCGT
131 TACTTTGGGCCTATCGGCGCCCAT
** *
515 TAGTTCCATTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCATTGTTTATGGC
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCATTGTTTATGGC
580 GTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
66 GTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
638 TAGTGACGTT
Statistics
Matches: 260, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
154 258 0.99
155 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (154 bp):
TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCATTGTTTATGGC
GTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAAACTTGT
TACTTTGGGCCTATCGGCGCCCAT
Found at i:742 original size:124 final size:123
Alignment explanation
Indices: 523--761 Score: 424
Period size: 124 Copynumber: 1.9 Consensus size: 123
513 GTTAGTTCCA
*
523 TTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCATTGTTTATGGCGTAACTAT
1 TTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
*
588 AATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAATAGTGACG
66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAATAGTGACG
* * *
646 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTTCCATTGTTTATTGCCTAACTA
1 TTTTGAATCGTCTTCGATTTGGCAAACCCCAATGC-TTTTCTTTCCATTGTTTATGGCCTAACTA
711 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
65 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
762 CACTTGTTAC
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
123 34 0.31
124 76 0.69
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (123 bp):
TTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAATAGTGACG
Found at i:966 original size:278 final size:277
Alignment explanation
Indices: 361--1074 Score: 1212
Period size: 278 Copynumber: 2.6 Consensus size: 277
351 TGCGGCCCAT
* * * *
361 TAGTGACGTTTTGAATCCTCTTCGATTTGGCAAACCGCAATGCTTTTCTTTCCATTGTTTATGGC
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATAGC
* * *
426 GTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAAACTTGT
66 CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
* **
491 TACTTTGGGCCTATCGGCGCCCGTTAGTTCCATTTTGAATCGTCTTCGATTTGGCAAACCCCAAT
131 TACTTTGGGCCTATCGGGGCCCGTTAGTGACATTTTGAATCGTCTTCGATTTGGCAAACCCCAAT
* * *
556 GCTTTTCTTTCCATTGTTTATGGCGTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGT
196 GCTTTTCTTTCCATTATTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGT
*
621 TTTTAGCTCATTTGGAA
261 TTTTAGCTCATTTGAAA
*
638 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTTCCATTGTTTATTG
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGC-TTTTTTTTCCATTGTTTATAG
703 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG
65 CCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG
* * *
768 TTACTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAA
130 TTACTTTGGGCCTATCGGGGCCCGTTAGTGACATTTTGAATCGTCTTCGATTTGGCAAACCCCAA
* *
833 TTGCTTTTTTTTCCATTATTTATTGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAA
195 -TGCTTTTCTTTCCATTATTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAA
898 GTTTTTAGCTCATTTGAAA
259 GTTTTTAGCTCATTTGAAA
*
917 TATTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATAGC
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATAGC
*
982 CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACATGT
66 CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
1047 TACTTTGGGCCTATCGGGGCCCGTTAGT
131 TACTTTGGGCCTATCGGGGCCCGTTAGT
1075 TCTGTAAGTT
Statistics
Matches: 412, Mismatches: 23, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
277 41 0.10
278 252 0.61
279 119 0.29
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (277 bp):
TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATAGC
CTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
TACTTTGGGCCTATCGGGGCCCGTTAGTGACATTTTGAATCGTCTTCGATTTGGCAAACCCCAAT
GCTTTTCTTTCCATTATTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGT
TTTTAGCTCATTTGAAA
Found at i:1016 original size:123 final size:124
Alignment explanation
Indices: 796--1036 Score: 457
Period size: 123 Copynumber: 2.0 Consensus size: 124
786 GGCCCATTAG
*
796 TGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATTGCTTTTTTTTCCATTATTTATTGCCT
1 TGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATTGCTTTTTTTTCCATTATTTATAGCCT
861 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGAAATAT
66 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGAAATAT
*
920 TGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAA-TGCTTTTTTTTCCATTGTTTATAGCCT
1 TGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATTGCTTTTTTTTCCATTATTTATAGCCT
984 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTG
66 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTG
1037 GAACACATGT
Statistics
Matches: 115, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
123 78 0.68
124 37 0.32
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (124 bp):
TGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATTGCTTTTTTTTCCATTATTTATAGCCT
AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGAAATAT
Found at i:1128 original size:61 final size:62
Alignment explanation
Indices: 1014--1135 Score: 174
Period size: 61 Copynumber: 2.0 Consensus size: 62
1004 GATTAGTCCA
* * *
1014 CTGTGAAGTTTTTAGCTCATTTGGAACACATGTTACTTTGGGCCTATCGGGGCCCGTTAGTT
1 CTGTGAAGTTTTTAGCTCATTTGGAACACATGTTACTTTGAGCCTATCAGGGCCCATTAGTT
* * * *
1076 CTGT-AAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGAGCCTTTTAGGGCCCATTAGT
1 CTGTGAAGTTTTTAGCTCATTTGGAACACATGTTACTTTGAGCCTATCAGGGCCCATTAGT
1136 GACGTTTTGA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
61 49 0.92
62 4 0.08
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (62 bp):
CTGTGAAGTTTTTAGCTCATTTGGAACACATGTTACTTTGAGCCTATCAGGGCCCATTAGTT
Found at i:1293 original size:216 final size:215
Alignment explanation
Indices: 920--1505 Score: 978
Period size: 216 Copynumber: 2.7 Consensus size: 215
910 TTTGAAATAT
*
920 TGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTT-ATAGCCT
1 TGACGTTTTGAATCGTATTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTAAT-GCCT
*
984 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACATGTTA
65 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTA
*
1049 CTTTGGGCCTATCGGGGCCCGTTAGTTCTGTAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT
130 CTTTGGGCCTATCGGGGCCCGTTAGTTCTGTAAGTTTTTACCTCATTTGGAACACTTGTTATTTT
*
1114 GAGCCTTTTAGGGCCCATTAG
195 GAGCCTTTCAGGGCCCATTAG
* *
1135 TGACGTTTTGAATCGTATTCAATTTGGCAAACCCCAATGCTTTTTTTTTCCATTGTTTAATGCCT
1 TGACGTTTTGAATCGTATTCGATTTGGCAAACCTCAATGC-TTTTTTTTCCATTGTTTAATGCCT
* *
1200 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCAATTGAAACACTTGTTA
65 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTA
* *
1265 CTTTGGGCCTATCGGGGCCCGTTAGTTCTGTAAGTTTTTACCTCATTTGGACCAGTTGTTATTTT
130 CTTTGGGCCTATCGGGGCCCGTTAGTTCTGTAAGTTTTTACCTCATTTGGAACACTTGTTATTTT
* *
1330 GGGCCTTTCGGGGCCCATTAG
195 GAGCCTTTCAGGGCCCATTAG
*
1351 TGACGTTTTGAATCGTCA-TCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATTGCCT
1 TGACGTTTTGAATCGT-ATTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTAATGCCT
*
1415 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGGTTTTAGCTCATTTGGAACACTTGTTA
65 AACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTA
* * *
1480 TTTTGGGCCTATTGGGGCCCATTAGT
130 CTTTGGGCCTATCGGGGCCCGTTAGT
1506 GACGTTTTGA
Statistics
Matches: 347, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
215 145 0.42
216 199 0.57
217 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (215 bp):
TGACGTTTTGAATCGTATTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTAATGCCTA
ACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTAC
TTTGGGCCTATCGGGGCCCGTTAGTTCTGTAAGTTTTTACCTCATTTGGAACACTTGTTATTTTG
AGCCTTTCAGGGCCCATTAG
Found at i:1300 original size:61 final size:62
Alignment explanation
Indices: 1230--1351 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 62
1220 GATTAGTCCA
* *
1230 CTGTGAAGTTTTTAGCTCAATTGAAACACTTGTTACTTTGGGCCTATCGGGGCCCGTTAGTT
1 CTGTGAAGTTTTTACCTCAATTGAAACACTTGTTACTTTGGGCCTATCGGGGCCCATTAGTT
* * * * * *
1292 CTGT-AAGTTTTTACCTCATTTGGACCAGTTGTTATTTTGGGCCTTTCGGGGCCCATTAGT
1 CTGTGAAGTTTTTACCTCAATTGAAACACTTGTTACTTTGGGCCTATCGGGGCCCATTAGT
1352 GACGTTTTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
61 48 0.92
62 4 0.08
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (62 bp):
CTGTGAAGTTTTTACCTCAATTGAAACACTTGTTACTTTGGGCCTATCGGGGCCCATTAGTT
Found at i:1518 original size:154 final size:154
Alignment explanation
Indices: 1292--2086 Score: 1292
Period size: 154 Copynumber: 5.2 Consensus size: 154
1282 CCCGTTAGTT
* * *
1292 CTGT-AAGTTTTTACCTCATTTGGACCAGTTGTTATTTTGGGCCTTTCGGGGCCCATTAGTGACG
1 CTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCCCATTAGTGACG
* * *
1356 TTTTGAATCGTCATCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATTGCCTAACTAT
66 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
1421 AATCATTTTGGTGAGATTAGTCCA
131 AATCATTTTGGTGAGATTAGTCCA
*
1445 CTGTGAAGGTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATT-GGGGCCCATTAGTGAC
1 CTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCT-TTCGGGGCCCATTAGTGAC
* *
1509 GTTTTGAATCCTCTTCGATTTGGCAAACCGCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA
65 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA
1574 TAATCATTTTGGTGAGATTAGTCCA
130 TAATCATTTTGGTGAGATTAGTCCA
* * * *
1599 CTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTAGGTCTATAGGGGCCCATTAGTGACG
1 CTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCCCATTAGTGACG
1664 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
66 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
* *
1729 AATCGTTTTGGTGAAATTAGTCCA
131 AATCATTTTGGTGAGATTAGTCCA
* **
1753 CTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCATTTCGGGGCCCATTAGTTCCG
1 CTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCCCATTAGTGACG
* *
1818 TTTTAAATCGCCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
66 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
1883 AATCATTTTGGTGAGATTAGTCCA
131 AATCATTTTGGTGAGATTAGTCCA
* * * * *
1907 ATGTGAAGTTTTTAGGTCATTCGGAACACTTGTTATTTTGGGCCTTTCGGAGCCCATTAGT-TCT
1 CTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCCCATTAGTGAC-
* *
1971 GTTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTA
65 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA
2036 TAAT-ACTTTTGGTGAGATTAGTCCA
130 TAATCA-TTTTGGTGAGATTAGTCCA
2061 CTGTGAAGTTTTTAGCTCATTTGGAA
1 CTGTGAAGTTTTTAGCTCATTTGGAA
2087 TAGTGACGTT
Statistics
Matches: 596, Mismatches: 41, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
153 7 0.01
154 587 0.98
155 2 0.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (154 bp):
CTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCCCATTAGTGACG
TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
AATCATTTTGGTGAGATTAGTCCA
Found at i:2191 original size:125 final size:123
Alignment explanation
Indices: 1971--2211 Score: 419
Period size: 125 Copynumber: 1.9 Consensus size: 123
1961 CATTAGTTCT
*
1971 GTTTTGAATCGTCTTCGATTTGGCAAACCCCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTA
1 GTTTTGAATCGTCTTCGATTTGCCAAACCCCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTA
2036 TAATACTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAATAGTGAC
66 TAATACTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAATAGTGAC
* *
2094 GTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGCTTTTTGTTTTCCAATGTTTATGGCCTAAC
1 GTTTTGAATCGTCTTCGATTTGCCAAACCCCAATGC-TTTT-CTTTCCAATGTTTATGGCCTAAC
* *
2159 TATACTCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
64 TATAATACTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
2212 CACTTGTTAT
Statistics
Matches: 111, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
123 34 0.31
124 4 0.04
125 73 0.66
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (123 bp):
GTTTTGAATCGTCTTCGATTTGCCAAACCCCAATGCTTTTCTTTCCAATGTTTATGGCCTAACTA
TAATACTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAATAGTGAC
Found at i:2379 original size:154 final size:154
Alignment explanation
Indices: 2087--3057 Score: 1446
Period size: 154 Copynumber: 6.3 Consensus size: 154
2077 TCATTTGGAA
* * *
2087 TAGTGACGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGCTTTTTGTTTTCCAATGTTTATG
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGC-TTTT-CTTTCCATTGTTTATG
*
2152 GCCTAACTATACTCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTT
64 GCCTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTT
*
2217 GTTATTTTGGGCCTTTCGGGGCACAT
129 GTTATTTTGGGCCTTTCGGGGCCCAT
* ** * * *
2243 TCGTTCCGTGTTGAATCGCCTTCGATTTGGCAAACC-CTAATGCTTTTCTTTCAATTGTTTATGG
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTC-AATGCTTTTCTTTCCATTGTTTATGG
*
2307 CCAAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG
65 CCTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG
* **
2372 TTATTTTGGCCCTTTCGTTGCCCAT
130 TTATTTTGGGCCTTTCGGGGCCCAT
*
2397 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCGCAATGCTTTT-TTTCCATTGTTTATGGC
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGC
* * *
2461 CTAACTATACTCATTTTGGTGAGATTAGTCCACTGTGAAG-TTTTAGCTCATTTGGAACACTTCT
66 CTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
* *
2525 TATTTTGGGCCTATCGGGGCCCGT
131 TATTTTGGGCCTTTCGGGGCCCAT
* * * * *
2549 TAGTGACGTTTTGAATCATTTTTGATTTGGCAAACCTCAATGCTTTTCTTTCCATTATTTAAGGC
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGC
2614 CTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
66 CTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
* * **
2679 TATTTCGGGCATTTCGGAACCCAT
131 TATTTTGGGCCTTTCGGGGCCCAT
* * *
2703 AAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATTGC
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGC
** * *
2768 CTAACTATAATCAATTTGGTGAGATTAGCCCACTGTGAAGTTTTTAGCTCATTTGGATCACTTGT
66 CTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
* ** * *
2833 TACTTTGGGCCTACCGTGGCCCGT
131 TATTTTGGGCCTTTCGGGGCCCAT
** *
2857 TAGTTCCGTTTTGAATCGTCTTCGATTTGACAAACCAT-AATGCTTTTCTTTCCATTGTTTATGG
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACC-TCAATGCTTTTCTTTCCATTGTTTATGG
* *
2921 CCTAACTATAATCCTTTTGGTGAGATTTGTCCACTGTGAAGTTTTTAGCTCATTTGGAACATTTG
65 CCTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG
2986 TTATTTTGGGCCTTTCGGGGCCCAT
130 TTATTTTGGGCCTTTCGGGGCCCAT
*
3011 TAGTGACGTTTTGAATCGTTTTCGATTTGGCAAACCTCAATGCTTTT
1 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTT
3058 TT
Statistics
Matches: 722, Mismatches: 87, Indels: 14
0.88 0.11 0.02
Matches are distributed among these distances:
152 85 0.12
153 107 0.15
154 488 0.68
155 7 0.01
156 35 0.05
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (154 bp):
TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGC
CTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
TATTTTGGGCCTTTCGGGGCCCAT
Found at i:2663 original size:893 final size:894
Alignment explanation
Indices: 1292--2979 Score: 2765
Period size: 893 Copynumber: 1.9 Consensus size: 894
1282 CCCGTTAGTT
* * *
1292 CTGTAAGTTTTTACCTCATTTGGACCAGTTGTTATTTTGGGCCTTTCGGGGCCCATTAGTGACGT
1 CTGTAAGTTTTTACCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCACATTAGTGACGT
* * * * * *
1357 TTTGAATCGTCATCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATTGCCTAACTATA
66 GTTGAATCGCCATCGATTTGGCAAACCTCAATGCTTTTCTTTCAATTGTTTATGGCCAAACTATA
*
1422 ATCATTTTGGTGAGATTAGTCCACTGTGAAGGTTTTAGCTCATTTGGAACACTTGTTATTTTGGG
131 ATCATTTTGGTGAGATTAGTCCACTGTGAAGGTTTTAGCTCATTTGGAACACTTGTTATTTTGGC
1487 CCTATTGGGGCCCATTAGTGACGTTTTGAATCCTCTTCGATTTGGCAAACCGCAATGCTTTTCTT
196 CCTATTGGGGCCCATTAGTGACGTTTTGAATCCTCTTCGATTTGGCAAACCGCAATGCTTTTCTT
1552 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC
261 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC
* * *
1617 ATTTGGAACACTTGTTATTTTAGGTCTATAGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGAT
326 ATTTGGAACACTTCTTATTTTAGGCCTATAGGGGCCCATTAGTGACGTTTTGAATCATCTTCGAT
* * *
1682 TTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCGTTTTGGTGAAATT
391 TTGGCAAACCTCAATGCTTTTCTTTCCATTATTTAAGGCCTAACTATAATCCTTTTGGTGAAATT
* ** *
1747 AGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCATTTCGGGGCCCATTA
456 AGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTCGGGCATTTCGGAACCCATAA
**
1812 GTTCCGTTTTAAATCGCCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCT
521 GTGACGTTTTAAATCGCCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCT
* * *
1877 AACTATAATCATTTTGGTGAGATTAGTCCAATGTGAAGTTTTTAGGTCATTCGGAACACTTGTTA
586 AACTATAATCAATTTGGTGAGATTAGCCCAATGTGAAGTTTTTAGCTCATTCGGAACACTTGTTA
* ** * * *
1942 TTTTGGGCCTTTCG-GAGCCCATTAGTTCTGTTTTGAATCGTCTTCGATTTGGCAAACCCCAATG
651 CTTTGGGCCTACCGTG-GCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGACAAACCACAATG
2006 CTTTTCTTTCCAATGTTTATGGCCTAACTATAATACTTTTGGTGAGATTAGTCCACTGTGAAGTT
715 CTTTTCTTTCCAATGTTTATGGCCTAACTATAATACTTTTGGTGAGATTAGTCCACTGTGAAGTT
2071 TTTAGCTCATTTGGAATAGTGACGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGCTTTTTG
780 TTTAGCTCATTTGGAATAGTGACGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGCTTTTTG
2136 TTTTCCAATGTTTATGGCCTAACTATACTCCTTTTGGTGAGATTAGTCCA
845 TTTTCCAATGTTTATGGCCTAACTATACTCCTTTTGGTGAGATTAGTCCA
* * **
2186 CTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCACATTCGTTCCG
1 CTGT-AAGTTTTTACCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCACATTAGTGACG
*
2251 TGTTGAATCGCCTTCGATTTGGCAAACC-CTAATGCTTTTCTTTCAATTGTTTATGGCCAAACTA
65 TGTTGAATCGCCATCGATTTGGCAAACCTC-AATGCTTTTCTTTCAATTGTTTATGGCCAAACTA
* *
2315 TAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG
129 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGGTTTTAGCTCATTTGGAACACTTGTTATTTTG
** *
2380 GCCCT-TTCGTTGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCGCAATGCTTTT
194 GCCCTATT-GGGGCCCATTAGTGACGTTTTGAATCCTCTTCGATTTGGCAAACCGCAATGCTTTT
*
2444 -TTTCCATTGTTTATGGCCTAACTATACTCATTTTGGTGAGATTAGTCCACTGTGAAG-TTTTAG
258 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
* * * * *
2507 CTCATTTGGAACACTTCTTATTTTGGGCCTATCGGGGCCCGTTAGTGACGTTTTGAATCATTTTT
323 CTCATTTGGAACACTTCTTATTTTAGGCCTATAGGGGCCCATTAGTGACGTTTTGAATCATCTTC
*
2572 GATTTGGCAAACCTCAATGCTTTTCTTTCCATTATTTAAGGCCTAACTATAATCCTTTTGGTGAG
388 GATTTGGCAAACCTCAATGCTTTTCTTTCCATTATTTAAGGCCTAACTATAATCCTTTTGGTGAA
2637 ATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTCGGGCATTTCGGAACCCA
453 ATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTCGGGCATTTCGGAACCCA
* * * *
2702 TAAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTTTTTCCATTGTTTATTG
518 TAAGTGACGTTTTAAATCGCCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGG
* * *
2767 CCTAACTATAATCAATTTGGTGAGATTAGCCCACTGTGAAGTTTTTAGCTCATTTGGATCACTTG
583 CCTAACTATAATCAATTTGGTGAGATTAGCCCAATGTGAAGTTTTTAGCTCATTCGGAACACTTG
* *
2832 TTACTTTGGGCCTACCGTGGCCCGTTAGTTCCGTTTTGAATCGTCTTCGATTTGACAAACCATAA
648 TTACTTTGGGCCTACCGTGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGACAAACCACAA
* * *
2897 TGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCCTTTTGGTGAGATTTGTCCACTGTGAAG
713 TGCTTTTCTTTCCAATGTTTATGGCCTAACTATAATACTTTTGGTGAGATTAGTCCACTGTGAAG
2962 TTTTTAGCTCATTTGGAA
778 TTTTTAGCTCATTTGGAA
2980 CATTTGTTAT
Statistics
Matches: 730, Mismatches: 60, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
893 438 0.60
894 64 0.09
895 228 0.31
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (894 bp):
CTGTAAGTTTTTACCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGCACATTAGTGACGT
GTTGAATCGCCATCGATTTGGCAAACCTCAATGCTTTTCTTTCAATTGTTTATGGCCAAACTATA
ATCATTTTGGTGAGATTAGTCCACTGTGAAGGTTTTAGCTCATTTGGAACACTTGTTATTTTGGC
CCTATTGGGGCCCATTAGTGACGTTTTGAATCCTCTTCGATTTGGCAAACCGCAATGCTTTTCTT
TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC
ATTTGGAACACTTCTTATTTTAGGCCTATAGGGGCCCATTAGTGACGTTTTGAATCATCTTCGAT
TTGGCAAACCTCAATGCTTTTCTTTCCATTATTTAAGGCCTAACTATAATCCTTTTGGTGAAATT
AGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTCGGGCATTTCGGAACCCATAA
GTGACGTTTTAAATCGCCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCT
AACTATAATCAATTTGGTGAGATTAGCCCAATGTGAAGTTTTTAGCTCATTCGGAACACTTGTTA
CTTTGGGCCTACCGTGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGACAAACCACAATGC
TTTTCTTTCCAATGTTTATGGCCTAACTATAATACTTTTGGTGAGATTAGTCCACTGTGAAGTTT
TTAGCTCATTTGGAATAGTGACGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGCTTTTTGT
TTTCCAATGTTTATGGCCTAACTATACTCCTTTTGGTGAGATTAGTCCA
Done.